Ok, so I made 2 mods.

1.) No Fast Travel
2.) No Waiting

Steps to make:
Opened "Creation Kit"
Made a new file called NoFastTravel.esp and set it as my active file.
Navigated to "World" -> "WorldSpaces".
On this screen I selected everyplace in the game and changed the check box "Can't Fast Travel From Here"
Then I saved & tested...

I did this twice for the 2 mods. When I load 1 mod its works fine. when I load the other is works just fine too, but when I load both together neither mod works. (I also made both the mods in 1 file and they both worked, the problem is I want to make several mods and make sure they can work with any other mod.)

Why can't I make multiple .esp files that are compatible with one another?