diff --git a/antic/dune b/antic/dune
index a14c50b..e511e7a 100644
--- a/antic/dune
+++ b/antic/dune
@@ -1,6 +1,8 @@
 (library
  (name antic)
  (public_name antic)
- (c_library_flags -lantic)
+ (c_library_flags
+  (:include ../configure/flint_libs.sexp)
+  (:include ../configure/antic_libs.sexp))
  (libraries zarith flint threads)
  (flags -w -9-27))
diff --git a/arb/dune b/arb/dune
index 516836f..8c632a9 100644
--- a/arb/dune
+++ b/arb/dune
@@ -2,13 +2,16 @@
  (name arb)
  (public_name arb)
  (c_library_flags
-  -lflint
-  (:include ../configure/arb_cflag.sexp))
+  (:include ../configure/common_libs.sexp)
+  (:include ../configure/flint_libs.sexp)
+  (:include ../configure/arb_libs.sexp))
  (foreign_stubs
   (language c)
   (names ocaml_acb_utils)
   (flags
-   (:include ../configure/c_flags.sexp)
+   (:include ../configure/common_cflags.sexp)
+   (:include ../configure/flint_cflags.sexp)
+   (:include ../configure/arb_cflags.sexp)
    :standard))
  (libraries zarith flint threads)
  (flags -w -9-27)
@@ -18,11 +21,14 @@
    (vendored
     (c_flags
      "-Werror=implicit-function-declaration"
-     (:include ../configure/c_flags.sexp)
+     (:include ../configure/common_cflags.sexp)
+     (:include ../configure/flint_cflags.sexp)
+     (:include ../configure/arb_cflags.sexp)
      :standard)
     (c_library_flags
-     (:include ../configure/libs.sexp)
-     "-lgmp -lmpfr")))
+     (:include ../configure/common_libs.sexp)
+     (:include ../configure/flint_libs.sexp)
+     (:include ../configure/arb_libs.sexp))))
   (headers
    (include "acb.h" "string.h"))
   (type_description
diff --git a/calcium/dune b/calcium/dune
index 79242c8..ddced75 100644
--- a/calcium/dune
+++ b/calcium/dune
@@ -2,15 +2,20 @@
  (name calcium)
  (public_name calcium)
  (c_library_flags
-  -lflint
-  (:include ../configure/arb_cflag.sexp)
-  -lantic
-  -lcalcium)
+  (:include ../configure/common_libs.sexp)
+  (:include ../configure/flint_libs.sexp)
+  (:include ../configure/arb_libs.sexp)
+  (:include ../configure/antic_libs.sexp)
+  (:include ../configure/calcium_libs.sexp))
  (foreign_stubs
   (language c)
   (names ocaml_calcium_utils)
   (flags
-   (:include ../configure/c_flags.sexp)
+   (:include ../configure/common_cflags.sexp)
+   (:include ../configure/flint_cflags.sexp)
+   (:include ../configure/arb_cflags.sexp)
+   (:include ../configure/antic_cflags.sexp)
+   (:include ../configure/calcium_cflags.sexp)
    :standard))
  (libraries zarith flint arb antic threads)
  (flags -w -9-27)
@@ -19,19 +24,21 @@
   (build_flags_resolver
    (vendored
     (c_flags
-     "-Iflint"
-     "-Iantic"
-     "-Icalcium"
      "-Werror=implicit-function-declaration"
-     (:include ../configure/c_flags.sexp)
+     (:include ../configure/common_cflags.sexp)
+     (:include ../configure/flint_cflags.sexp)
+     (:include ../configure/arb_cflags.sexp)
+     (:include ../configure/antic_cflags.sexp)
+     (:include ../configure/calcium_cflags.sexp)
      :standard)
     (c_library_flags
-     (:include ../configure/libs.sexp)
-     "-lgmp -lmpfr -lflint"
-     (:include ../configure/arb_cflag.sexp)
-     "-lantic -lcalcium")))
+     (:include ../configure/common_libs.sexp)
+     (:include ../configure/flint_libs.sexp)
+     (:include ../configure/arb_libs.sexp)
+     (:include ../configure/antic_libs.sexp)
+     (:include ../configure/calcium_libs.sexp))))
   (headers
-   (include "calcium/ca.h" "string.h"))
+   (include "ca.h" "string.h"))
   (type_description
    (instance Type)
    (functor Type_description))
diff --git a/calcium/ocaml_calcium_utils.c b/calcium/ocaml_calcium_utils.c
index fc6f3eb..673cf70 100644
--- a/calcium/ocaml_calcium_utils.c
+++ b/calcium/ocaml_calcium_utils.c
@@ -1,4 +1,4 @@
-#include "calcium/ca.h"
+#include "ca.h"
 #include "ctypes_cstubs_internals.h"
 #include <stdio.h>
 
diff --git a/configure/dune b/configure/dune
index 769cc3c..97667a1 100644
--- a/configure/dune
+++ b/configure/dune
@@ -1,13 +1,29 @@
 (executables
- (names discover find_arb)
+ (names find_common find_flint find_arb find_antic find_calcium)
+ (modules find_common find_flint find_arb find_antic find_calcium util)
  (libraries dune-configurator))
 
 (rule
- (targets c_flags.sexp libs.sexp)
+ (targets common_cflags.sexp common_libs.sexp)
  (action
-  (run ./discover.exe)))
+  (run ./find_common.exe)))
 
 (rule
- (targets arb_cflag.sexp)
+ (targets flint_cflags.sexp flint_libs.sexp)
+ (action
+  (run ./find_flint.exe)))
+
+(rule
+ (targets arb_cflags.sexp arb_libs.sexp)
  (action
   (run ./find_arb.exe)))
+
+(rule
+ (targets antic_cflags.sexp antic_libs.sexp)
+ (action
+  (run ./find_antic.exe)))
+
+(rule
+ (targets calcium_cflags.sexp calcium_libs.sexp)
+ (action
+  (run ./find_calcium.exe)))
diff --git a/configure/find_antic.ml b/configure/find_antic.ml
new file mode 100644
index 0000000..54725c7
--- /dev/null
+++ b/configure/find_antic.ml
@@ -0,0 +1,40 @@
+module C = Configurator.V1
+
+(* Starting with version 3, `flint` integrates
+   `arb`, `antic`, and `calcium`. However, given
+   that it a recent release, not all distribution
+   will have it. Therefore we need to try and handle
+   both version 3 and version > 3 of `flint`, and
+   handle things differently depending on which version
+   is installed.
+
+   Also, as of now, neither debian nor archlinux packages
+   include pkg-config files, so we have to find other ways
+   to determine libs and cflags.
+
+   These are the different situations:
+   - on version <2 (and distros such as Debian):
+     + antic headers are in `/usr/include/antic`
+     + antic lib file is libantic.so
+   - on version 3 (and distros such as archlinux):
+     + antic headers are in `/usr/include/flint`
+     + antic library file does not exist (included in flint.so)
+*)
+
+(* Test the location of the `qfb.h` header to determine the
+   current situation *)
+let version c =
+  if Util.is_header_available c "antic/qfb.h" then `Antic2
+  else if Util.is_header_available c "flint/qfb.h" then `Flint3
+  else C.die "Could not find the `antic` library"
+
+let () =
+  C.main ~name:"find_antic" (fun c ->
+      let libs, cflags =
+        match version c with
+        | `Antic2 -> ([ "-lantic" ], [ "-I/usr/include/antic" ])
+        | `Flint3 -> ([], [ "-I/usr/include/flint" ])
+      in
+      C.Flags.write_sexp "antic_cflags.sexp" cflags;
+      C.Flags.write_sexp "antic_libs.sexp" libs;
+      ())
diff --git a/configure/find_arb.ml b/configure/find_arb.ml
index 901aef8..03259a9 100644
--- a/configure/find_arb.ml
+++ b/configure/find_arb.ml
@@ -1,35 +1,40 @@
-
 module C = Configurator.V1
 
-(* Unfortunately, at least on archlinux, the `arb`,
-   `flint`, 'antic` and `calcium` library do not
-   install the files required for pkg-config to work.
-   Additionally, the name of the c installed c library
-   for `arb` is different on archlinux (where it is
-   `-larb` instead of `lflint-arb`).
+(* Starting with version 3, `flint` integrates
+   `arb`, `antic`, and `calcium`. However, given
+   that it a recent release, not all distribution
+   will have it. Therefore we need to try and handle
+   both version 3 and version > 3 of `flint`, and
+   handle things differently depending on which version
+   is installed.
+
+   Also, as of now, neither debian nor archlinux packages
+   include pkg-config files, so we have to find other ways
+   to determine libs and cflags.
 
-   Therefore, this is a small hack to determine which
-   flag to use for `arb`. *)
-let find_working_cflag ~name ~c flags =
-  let dummy_c_main = {|int main() { return 0; }|} in
-  let rec aux = function
-    | [] ->
-      C.die "Could not find an available c libname for %s" name
-    | cflag :: r ->
-      if C.c_test c ~c_flags:[cflag] dummy_c_main
-      then cflag
-      else aux r
-  in
-  aux flags
+   These are the different situations:
+   - on version <2 (and distros such as Debian):
+     + arb headers are directly in `/usr/include`
+     + arb lib file is libflint-arb.so
+   - on version 3 (and distros such as archlinux):
+     + arb headers are in `/usr/include/flint`
+     + arb library file does not exist (included in flint.so)
+*)
+
+(* Test the location of the `arb.h` header to determine the
+   current situation *)
+let version c =
+  if Util.is_header_available c "arb.h" then `Arb2
+  else if Util.is_header_available c "flint/arb.h" then `Flint3
+  else C.die "Could not find the `arb` library"
 
 let () =
   C.main ~name:"find_arb" (fun c ->
-      let arb_cflag =
-        find_working_cflag ~name:"arb" ~c [
-          "-lflint-arb"; (* on most system *)
-          "-larb"; (* on archlinux *)
-        ]
+      let libs, cflags =
+        match version c with
+        | `Arb2 -> ([ "-lflint-arb" ], [])
+        | `Flint3 -> ([], [ "-I/usr/include/flint" ])
       in
-
-      C.Flags.write_sexp "arb_cflag.sexp" [arb_cflag]
-    )
+      C.Flags.write_sexp "arb_cflags.sexp" cflags;
+      C.Flags.write_sexp "arb_libs.sexp" libs;
+      ())
diff --git a/configure/find_calcium.ml b/configure/find_calcium.ml
new file mode 100644
index 0000000..3e5e0eb
--- /dev/null
+++ b/configure/find_calcium.ml
@@ -0,0 +1,40 @@
+module C = Configurator.V1
+
+(* Starting with version 3, `flint` integrates
+   `arb`, `antic`, and `calcium`. However, given
+   that it a recent release, not all distribution
+   will have it. Therefore we need to try and handle
+   both version 3 and version > 3 of `flint`, and
+   handle things differently depending on which version
+   is installed.
+
+   Also, as of now, neither debian nor archlinux packages
+   include pkg-config files, so we have to find other ways
+   to determine libs and cflags.
+
+   These are the different situations:
+   - on version <2 (and distros such as Debian):
+     + antic headers are in `/usr/include/antic`
+     + antic lib file is libantic.so
+   - on version 3 (and distros such as archlinux):
+     + calcium headers are in `/usr/include/flint`
+     + calcium library file does not exist (included in flint.so)
+*)
+
+(* Test the location of the `qfb.h` header to determine the
+   current situation *)
+let version c =
+  if Util.is_header_available c "calcium/calcium.h" then `Calcium2
+  else if Util.is_header_available c "flint/calcium.h" then `Flint3
+  else C.die "Could not find the `calcium` library"
+
+let () =
+  C.main ~name:"find_calcium" (fun c ->
+      let libs, cflags =
+        match version c with
+        | `Calcium2 -> ([ "-lcalcium" ], [ "-I/usr/include/calcium" ])
+        | `Flint3 -> ([], [ "-I/usr/include/flint" ])
+      in
+      C.Flags.write_sexp "calcium_cflags.sexp" cflags;
+      C.Flags.write_sexp "calcium_libs.sexp" libs;
+      ())
diff --git a/configure/discover.ml b/configure/find_common.ml
similarity index 69%
rename from configure/discover.ml
rename to configure/find_common.ml
index 10be03f..121f8a2 100644
--- a/configure/discover.ml
+++ b/configure/find_common.ml
@@ -4,7 +4,9 @@ let () =
   C.main ~name:"discover" (fun c ->
       let cflags, libs =
         match C.Pkg_config.get c with
-        | None -> ([], [])
+        | None ->
+            (* sane defaults in the absence of pkg-config *)
+            ([ "-lgmp"; "-lmpfr" ], [])
         | Some pc ->
             let flags ~package =
               match C.Pkg_config.query pc ~package with
@@ -13,9 +15,8 @@ let () =
             in
             let gmp = flags ~package:"gmp" in
             let mpfr = flags ~package:"mpfr" in
-
             (fst gmp @ fst mpfr, snd gmp @ snd mpfr)
       in
 
-      C.Flags.write_sexp "c_flags.sexp" cflags;
-      C.Flags.write_sexp "libs.sexp" libs)
+      C.Flags.write_sexp "common_cflags.sexp" cflags;
+      C.Flags.write_sexp "common_libs.sexp" libs)
diff --git a/configure/find_flint.ml b/configure/find_flint.ml
new file mode 100644
index 0000000..7b9c9b5
--- /dev/null
+++ b/configure/find_flint.ml
@@ -0,0 +1,31 @@
+module C = Configurator.V1
+
+(* Starting with version 3, `flint` integrates
+   `arb`, `antic`, and `calcium`. However, given
+   that it a recent release, not all distribution
+   will have it. Therefore we need to try and handle
+   both version 3 and version > 3 of `flint`, and
+   handle things differently depending on which version
+   is installed.
+
+   Also, as of now, neither debian nor archlinux packages
+   include pkg-config files, so we have to find other ways
+   to determine libs and cflags.
+
+   These are the different situations:
+   - on version <2 (and distros such as Debian):
+     + flint headers are in `/usr/include/flint`
+     + flint lib file is libflint.so
+   - on version 3 (and distros such as archlinux):
+     + flint headers are in `/usr/include/flint`
+     + flint lib file is libflint.so
+*)
+
+(* Test the location of the `arb.h` header to determine the
+   current situation *)
+let () =
+  C.main ~name:"find_flint" (fun _c ->
+      let libs, cflags = ([ "-lflint" ], [ "-I/usr/include/flint" ]) in
+      C.Flags.write_sexp "flint_cflags.sexp" cflags;
+      C.Flags.write_sexp "flint_libs.sexp" libs;
+      ())
diff --git a/configure/util.ml b/configure/util.ml
new file mode 100644
index 0000000..6e0c73e
--- /dev/null
+++ b/configure/util.ml
@@ -0,0 +1,15 @@
+module C = Configurator.V1
+
+let is_header_available c ?(c_flags = []) h =
+  let c_main = Format.asprintf {|#include "%s"|} h in
+  let c_flags = "-c" :: c_flags in
+  C.c_test c ~c_flags c_main
+
+let find_working_cflag ~name ~c flags =
+  let dummy_c_main = {|int main() { return 0; }|} in
+  let rec aux = function
+    | [] -> C.die "Could not find an available c libname for %s" name
+    | cflag :: r ->
+        if C.c_test c ~c_flags:[ cflag ] dummy_c_main then cflag else aux r
+  in
+  aux flags
diff --git a/flint/dune b/flint/dune
index 85fd436..a3733d8 100644
--- a/flint/dune
+++ b/flint/dune
@@ -1,12 +1,15 @@
 (library
  (name flint)
  (public_name flint)
- (c_library_flags "-lflint")
+ (c_library_flags
+  (:include ../configure/common_libs.sexp)
+  (:include ../configure/flint_libs.sexp))
  (foreign_stubs
   (language c)
   (names ocaml_flint_utils)
   (flags
-   (:include ../configure/c_flags.sexp)
+   (:include ../configure/common_cflags.sexp)
+   (:include ../configure/flint_cflags.sexp)
    "-Werror=implicit-function-declaration"
    :standard)
   (include_dirs
@@ -19,13 +22,14 @@
    (vendored
     (c_flags
      "-Werror=implicit-function-declaration"
-     (:include ../configure/c_flags.sexp)
+     (:include ../configure/common_cflags.sexp)
+     (:include ../configure/flint_cflags.sexp)
      :standard)
     (c_library_flags
-     (:include ../configure/libs.sexp)
-     "-lgmp -lmpfr -lflint")))
+     (:include ../configure/common_libs.sexp)
+     (:include ../configure/flint_libs.sexp))))
   (headers
-   (include "flint/fmpz.h" "flint/fmpq.h" "flint/fmpz_poly.h" "string.h"))
+   (include "fmpz.h" "fmpq.h" "fmpz_poly.h" "string.h"))
   (type_description
    (instance Type)
    (functor Type_description))
diff --git a/flint/ocaml_flint_utils.c b/flint/ocaml_flint_utils.c
index ffc01dd..4b2db80 100644
--- a/flint/ocaml_flint_utils.c
+++ b/flint/ocaml_flint_utils.c
@@ -1,5 +1,5 @@
-#include "flint/fmpz.h"
-#include "flint/fmpz_poly.h"
+#include "fmpz.h"
+#include "fmpz_poly.h"
 #include "ctypes_cstubs_internals.h"
 #include "gmp.h"
 #include "zarith.h"