diff --git a/SConstruct b/SConstruct
index 13f6395f0..e1dd2e6c3 100644
--- a/SConstruct
+++ b/SConstruct
@@ -495,6 +495,7 @@ pickle_store = [# Scons internal variables
         'LIBPATH',
         'LIBS',
         'LINKFLAGS',
+        'RPATH',
         'CUSTOM_LDFLAGS', # user submitted
         'CUSTOM_DEFINES', # user submitted
         'CUSTOM_CXXFLAGS', # user submitted
@@ -1420,7 +1421,23 @@ if not preconfigured:
     env.Append(CXXFLAGS = env['CUSTOM_CXXFLAGS'])
     env.Append(CFLAGS = env['CUSTOM_CFLAGS'])
     env.Append(LINKFLAGS = DEFAULT_CXX14_LINKFLAGS)
-    env.Append(LINKFLAGS = env['CUSTOM_LDFLAGS'])
+
+    custom_ldflags = env.ParseFlags(env['CUSTOM_LDFLAGS'])
+    # ParseFlags puts everything it does not recognize into CCFLAGS,
+    # but let's assume the user knows better, put those in LINKFLAGS
+    env.Append(LINKFLAGS = custom_ldflags.pop('CCFLAGS'))
+    env.Append(LINKFLAGS = custom_ldflags.pop('LINKFLAGS'),
+               LIBS = custom_ldflags.pop('LIBS'))
+    env.AppendUnique(FRAMEWORKS = custom_ldflags.pop('FRAMEWORKS'),
+                     LIBPATH = custom_ldflags.pop('LIBPATH'),
+                     RPATH = custom_ldflags.pop('RPATH'))
+
+    invalid_ldflags = {k:v for k,v in custom_ldflags.items() if v}
+    if invalid_ldflags:
+        color_print(3, 'Warning: CUSTOM_LDFLAGS contained some flags that SCons recognized as not for linker.')
+        color_print(3, 'The following flags will be ignored:')
+        for key, value in invalid_ldflags.items():
+            color_print(3, '\t%s = %r' % (key, value))
 
     ### platform specific bits