The way I do my personal hacks is to create a .z2f with files with the same name in it, and then name the .z2f Z-Something. For instance, say I make a hack for the Nile Monitor to have a correct number of babies. This uses a beh file, and is in ai\tasks. So for the Nile Monitor file, I would want to make sure it was in a folder called "tasks" which would be in a folder called "ai." Zip this up and make it a .z2f starting with a Z so that it overrides the original game file instead of having to edit the actual files. Plus, if you ever want to get rid of it, you simply just have to delete the .z2f you made!