diff --git a/internal/compiler/fileloader.go b/internal/compiler/fileloader.go
index 941cdd6728..9fbbc49057 100644
--- a/internal/compiler/fileloader.go
+++ b/internal/compiler/fileloader.go
@@ -254,6 +254,7 @@ func processAllProgramFiles(
 		unsupportedExtensions:                unsupportedExtensions,
 		sourceFilesFoundSearchingNodeModules: sourceFilesFoundSearchingNodeModules,
 		libFiles:                             libFilesMap,
+		missingFiles:                         missingFiles,
 		includeProcessor:                     loader.includeProcessor,
 		outputFileToProjectReferenceSource:   outputFileToProjectReferenceSource,
 	}
diff --git a/internal/compiler/filesparser.go b/internal/compiler/filesparser.go
index e4f35280da..d0fb499a67 100644
--- a/internal/compiler/filesparser.go
+++ b/internal/compiler/filesparser.go
@@ -240,16 +240,15 @@ func (w *filesParser) collect(loader *fileLoader, tasks []*parseTask, iterate fu
 
 func (w *filesParser) collectWorker(loader *fileLoader, tasks []*parseTask, iterate func(*parseTask), seen collections.Set[*parseTask]) {
 	for _, task := range tasks {
-		if task.redirectedParseTask == nil {
+		// Exclude automatic type directive tasks from include reason processing,
+		// as these are internal implementation details and should not contribute
+		// to the reasons for including files.
+		if task.redirectedParseTask == nil && !task.isForAutomaticTypeDirective {
 			includeReason := task.includeReason
 			if task.loadedTask != nil {
 				task = task.loadedTask
 			}
-			if existing, ok := loader.includeProcessor.fileIncludeReasons[task.path]; ok {
-				loader.includeProcessor.fileIncludeReasons[task.path] = append(existing, includeReason)
-			} else {
-				loader.includeProcessor.fileIncludeReasons[task.path] = []*fileIncludeReason{includeReason}
-			}
+			w.addIncludeReason(loader, task, includeReason)
 		}
 		// ensure we only walk each task once
 		if !task.loaded || !seen.AddIfAbsent(task) {
@@ -267,3 +266,15 @@ func (w *filesParser) collectWorker(loader *fileLoader, tasks []*parseTask, iter
 		iterate(task)
 	}
 }
+
+func (w *filesParser) addIncludeReason(loader *fileLoader, task *parseTask, reason *fileIncludeReason) {
+	if task.redirectedParseTask != nil {
+		w.addIncludeReason(loader, task.redirectedParseTask, reason)
+	} else if task.loaded {
+		if existing, ok := loader.includeProcessor.fileIncludeReasons[task.path]; ok {
+			loader.includeProcessor.fileIncludeReasons[task.path] = append(existing, reason)
+		} else {
+			loader.includeProcessor.fileIncludeReasons[task.path] = []*fileIncludeReason{reason}
+		}
+	}
+}
diff --git a/internal/compiler/program.go b/internal/compiler/program.go
index 096b87f048..d571f10257 100644
--- a/internal/compiler/program.go
+++ b/internal/compiler/program.go
@@ -1541,6 +1541,18 @@ func (p *Program) GetSourceFiles() []*ast.SourceFile {
 	return p.files
 }
 
+// Testing only
+func (p *Program) GetIncludeReasons() map[tspath.Path][]*fileIncludeReason {
+	return p.includeProcessor.fileIncludeReasons
+}
+
+// Testing only
+func (p *Program) IsMissingPath(path tspath.Path) bool {
+	return slices.ContainsFunc(p.missingFiles, func(missingPath string) bool {
+		return p.toPath(missingPath) == path
+	})
+}
+
 func (p *Program) ExplainFiles(w io.Writer) {
 	toRelativeFileName := func(fileName string) string {
 		return tspath.GetRelativePathFromDirectory(p.GetCurrentDirectory(), fileName, p.comparePathsOptions)
diff --git a/internal/execute/tsctests/runner.go b/internal/execute/tsctests/runner.go
index 6c5b8e4457..7cb8c261bd 100644
--- a/internal/execute/tsctests/runner.go
+++ b/internal/execute/tsctests/runner.go
@@ -80,8 +80,7 @@ func (test *tscInput) run(t *testing.T, scenario string) {
 		sys.baselineFSwithDiff(baselineBuilder)
 		result := test.executeCommand(sys, baselineBuilder, test.commandLineArgs)
 		sys.serializeState(baselineBuilder)
-		sys.baselinePrograms(baselineBuilder)
-		var unexpectedDiff string
+		unexpectedDiff := sys.baselinePrograms(baselineBuilder, "Initial build")
 
 		for index, do := range test.edits {
 			sys.clearOutput()
@@ -101,7 +100,7 @@ func (test *tscInput) run(t *testing.T, scenario string) {
 					result.Watcher.DoCycle()
 				}
 				sys.serializeState(baselineBuilder)
-				sys.baselinePrograms(baselineBuilder)
+				unexpectedDiff += sys.baselinePrograms(baselineBuilder, fmt.Sprintf("Edit [%d]:: %s\n", index, do.caption))
 			})
 			wg.Queue(func() {
 				// Compute build with all the edits
diff --git a/internal/execute/tsctests/sys.go b/internal/execute/tsctests/sys.go
index 9cf4b1ed99..199fce8e76 100644
--- a/internal/execute/tsctests/sys.go
+++ b/internal/execute/tsctests/sys.go
@@ -141,6 +141,7 @@ type snapshot struct {
 type testSys struct {
 	currentWrite              *strings.Builder
 	programBaselines          strings.Builder
+	programIncludeBaselines   strings.Builder
 	tracer                    *harnessutil.TracerForBaselining
 	serializedDiff            *snapshot
 	forIncrementalCorrectness bool
@@ -287,18 +288,23 @@ func (s *testSys) GetTrace(w io.Writer) func(str string) {
 	}
 }
 
-func (s *testSys) OnProgram(program *incremental.Program) {
-	if s.programBaselines.Len() != 0 {
-		s.programBaselines.WriteString("\n")
+func (s *testSys) writeHeaderToBaseline(builder *strings.Builder, program *incremental.Program) {
+	if builder.Len() != 0 {
+		builder.WriteString("\n")
 	}
 
-	testingData := program.GetTestingData()
 	if configFilePath := program.Options().ConfigFilePath; configFilePath != "" {
-		s.programBaselines.WriteString(tspath.GetRelativePathFromDirectory(s.cwd, configFilePath, tspath.ComparePathsOptions{
+		builder.WriteString(tspath.GetRelativePathFromDirectory(s.cwd, configFilePath, tspath.ComparePathsOptions{
 			UseCaseSensitiveFileNames: s.FS().UseCaseSensitiveFileNames(),
 			CurrentDirectory:          s.GetCurrentDirectory(),
 		}) + "::\n")
 	}
+}
+
+func (s *testSys) OnProgram(program *incremental.Program) {
+	s.writeHeaderToBaseline(&s.programBaselines, program)
+
+	testingData := program.GetTestingData()
 	s.programBaselines.WriteString("SemanticDiagnostics::\n")
 	for _, file := range program.GetProgram().GetSourceFiles() {
 		if diagnostics, ok := testingData.SemanticDiagnosticsPerFile.Load(file.Path()); ok {
@@ -324,11 +330,44 @@ func (s *testSys) OnProgram(program *incremental.Program) {
 			}
 		}
 	}
+
+	var filesWithoutIncludeReason []string
+	var fileNotInProgramWithIncludeReason []string
+	includeReasons := program.GetProgram().GetIncludeReasons()
+	for _, file := range program.GetProgram().GetSourceFiles() {
+		if _, ok := includeReasons[file.Path()]; !ok {
+			filesWithoutIncludeReason = append(filesWithoutIncludeReason, string(file.Path()))
+		}
+	}
+	for path := range includeReasons {
+		if program.GetProgram().GetSourceFileByPath(path) == nil && !program.GetProgram().IsMissingPath(path) {
+			fileNotInProgramWithIncludeReason = append(fileNotInProgramWithIncludeReason, string(path))
+		}
+	}
+	if len(filesWithoutIncludeReason) > 0 || len(fileNotInProgramWithIncludeReason) > 0 {
+		s.writeHeaderToBaseline(&s.programIncludeBaselines, program)
+		s.programIncludeBaselines.WriteString("!!! Expected all files to have include reasons\nfilesWithoutIncludeReason::\n")
+		for _, file := range filesWithoutIncludeReason {
+			s.programIncludeBaselines.WriteString("  " + file + "\n")
+		}
+		s.programIncludeBaselines.WriteString("filesNotInProgramWithIncludeReason::\n")
+		for _, file := range fileNotInProgramWithIncludeReason {
+			s.programIncludeBaselines.WriteString("  " + file + "\n")
+		}
+	}
 }
 
-func (s *testSys) baselinePrograms(baseline *strings.Builder) {
+func (s *testSys) baselinePrograms(baseline *strings.Builder, header string) string {
 	baseline.WriteString(s.programBaselines.String())
 	s.programBaselines.Reset()
+	var result string
+	if s.programIncludeBaselines.Len() > 0 {
+		result += fmt.Sprintf("\n\n%s\n!!! Include reasons expectations don't match pls review!!!\n", header)
+		result += s.programIncludeBaselines.String()
+		s.programIncludeBaselines.Reset()
+		baseline.WriteString(result)
+	}
+	return result
 }
 
 func (s *testSys) serializeState(baseline *strings.Builder) {
diff --git a/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js b/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js
index 490ebbdb4b..8925e1504a 100644
--- a/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js
+++ b/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js
@@ -88,6 +88,7 @@ projects/shared/dist/src/logging.d.ts
    File is output of project reference source 'projects/shared/src/logging.ts'
 projects/shared/dist/src/myClass.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/shared/dist/src/random.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
@@ -426,6 +427,7 @@ projects/shared/dist/src/logging.d.ts
    File is output of project reference source 'projects/shared/src/logging.ts'
 projects/shared/dist/src/myClass.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/shared/dist/src/random.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
@@ -699,6 +701,7 @@ projects/shared/dist/src/logging.d.ts
    File is output of project reference source 'projects/shared/src/logging.ts'
 projects/shared/dist/src/myClass.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts
    Matched by include pattern 'src/**/*.ts' in 'projects/server/tsconfig.json'
diff --git a/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project.js b/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project.js
index 3286e84fd3..fba2e0b30f 100644
--- a/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project.js
+++ b/testdata/baselines/reference/tsbuild/roots/when-root-file-is-from-referenced-project.js
@@ -84,6 +84,7 @@ File '/home/src/workspaces/solution/projects/shared/src/myClass.ts' exists - use
 ../../tslibs/TS/Lib/lib.d.ts
    Default library for target 'ES5'
 projects/shared/dist/src/myClass.d.ts
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts
@@ -422,6 +423,7 @@ File '/home/src/workspaces/solution/projects/shared/src/myClass.ts' exists - use
 ../../tslibs/TS/Lib/lib.d.ts
    Default library for target 'ES5'
 projects/shared/dist/src/myClass.d.ts
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts
@@ -695,6 +697,7 @@ File '/home/src/workspaces/solution/projects/shared/src/myClass.ts' exists - use
 ../../tslibs/TS/Lib/lib.d.ts
    Default library for target 'ES5'
 projects/shared/dist/src/myClass.d.ts
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts
diff --git a/testdata/baselines/reference/tsbuild/sample/explainFiles.js b/testdata/baselines/reference/tsbuild/sample/explainFiles.js
index fa3112b13d..34f858c988 100644
--- a/testdata/baselines/reference/tsbuild/sample/explainFiles.js
+++ b/testdata/baselines/reference/tsbuild/sample/explainFiles.js
@@ -104,6 +104,7 @@ core/index.d.ts
    Imported via '../core/index' from file 'tests/index.ts'
    File is output of project reference source 'core/index.ts'
 core/anotherModule.d.ts
+   Imported via '../core/anotherModule' from file 'logic/index.d.ts'
    Imported via '../core/anotherModule' from file 'tests/index.ts'
    File is output of project reference source 'core/anotherModule.ts'
 logic/index.d.ts
@@ -527,6 +528,7 @@ core/index.d.ts
    Imported via '../core/index' from file 'tests/index.ts'
    File is output of project reference source 'core/index.ts'
 core/anotherModule.d.ts
+   Imported via '../core/anotherModule' from file 'logic/index.d.ts'
    Imported via '../core/anotherModule' from file 'tests/index.ts'
    File is output of project reference source 'core/anotherModule.ts'
 logic/index.d.ts
diff --git a/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js b/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js
index 3c26c1fb21..b3643a328a 100644
--- a/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js
+++ b/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project-and-shared-is-first.js
@@ -90,6 +90,7 @@ projects/shared/dist/src/logging.d.ts
    File is output of project reference source 'projects/shared/src/logging.ts'
 projects/shared/dist/src/myClass.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/shared/dist/src/random.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
@@ -422,6 +423,7 @@ projects/shared/dist/src/logging.d.ts
    File is output of project reference source 'projects/shared/src/logging.ts'
 projects/shared/dist/src/myClass.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/shared/dist/src/random.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
@@ -689,6 +691,7 @@ projects/shared/dist/src/logging.d.ts
    File is output of project reference source 'projects/shared/src/logging.ts'
 projects/shared/dist/src/myClass.d.ts
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts
    Matched by include pattern 'src/**/*.ts' in 'projects/server/tsconfig.json'
diff --git a/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project.js b/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project.js
index 22b038f81c..48f204da2b 100644
--- a/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project.js
+++ b/testdata/baselines/reference/tsbuildWatch/roots/when-root-file-is-from-referenced-project.js
@@ -86,6 +86,7 @@ File '/home/src/workspaces/solution/projects/shared/src/myClass.ts' exists - use
 ../../tslibs/TS/Lib/lib.d.ts
    Default library for target 'ES5'
 projects/shared/dist/src/myClass.d.ts
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts
@@ -418,6 +419,7 @@ File '/home/src/workspaces/solution/projects/shared/src/myClass.ts' exists - use
 ../../tslibs/TS/Lib/lib.d.ts
    Default library for target 'ES5'
 projects/shared/dist/src/myClass.d.ts
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts
@@ -685,6 +687,7 @@ File '/home/src/workspaces/solution/projects/shared/src/myClass.ts' exists - use
 ../../tslibs/TS/Lib/lib.d.ts
    Default library for target 'ES5'
 projects/shared/dist/src/myClass.d.ts
+   Imported via ':shared/myClass.js' from file 'projects/server/src/server.ts'
    Matched by include pattern '../shared/src/**/*.ts' in 'projects/server/tsconfig.json'
    File is output of project reference source 'projects/shared/src/myClass.ts'
 projects/server/src/server.ts