I need to know if the two patches are effectively the same.
I have an old patch file and new patch file created with the unix diff command. Just diff\'ing the patch
You could apply both patches to copies of the same source file and then use diff normally to check for differences in the results.
Patches represent changes to the input files, so two patches are the same if they have the same effect on the input files. Differences in patches are directly reflected in differences of the results of those patches.
Any differences between two patches that don't result in a difference in the result of those patches are irrelevant.