diff --git a/helpers/create-abi-dump.py b/helpers/create-abi-dump.py
--- a/helpers/create-abi-dump.py
+++ b/helpers/create-abi-dump.py
@@ -211,21 +211,23 @@
         additionalIncludes = set() # type: Set[str]
 
         # list of general include directories
-        noHeaders = set(buildEnvironment.get('CMAKE_PREFIX_PATH').split(":"))
-        noHeaders |= set([i+"/include" for i in buildEnvironment.get('CMAKE_PREFIX_PATH').split(":")])
+        prefixHeaders = [os.path.abspath(i) for i in buildEnvironment.get('CMAKE_PREFIX_PATH').split(":")]
+        noHeaders = set(prefixHeaders)
+        noHeaders |= set([os.path.join(i,"include") for i in prefixHeaders])
 
         # From the target information we previously collected...
         # Grab the list of libraries and include headers for abi-compliance-checker
         for target in self.targets.values():
             # Check each include directory to see if we need to add it....
             for i in target['include_dirs']:
+                abspath = os.path.abspath(i)
                 # ignore general folders, as there are no lib specific headers are placed
-                if i in noHeaders or i.endswith("/KF5"):
-                    additionalIncludes.add(i)
+                if abspath in noHeaders or abspath.endswith("/KF5"):
+                    additionalIncludes.add(abspath)
                     continue
 
                 # Otherwise, if we don't already have it - add it to the list!
-                headers.add(i)
+                headers.add(abspath)
 
             # If the library path isn't in the list, then we should add it to the list
             libs.add(target['path'])