what is the difference between missionary and reverend?

Reverned is used for matches.

Missionary compiles a list of different servers running that program and gives you players, pings. It check your pak file and config files to make sure everything is correct.

Reverend is a little different. It does NOT have a list of reverend servers out there. you have to input your own ip and password to get in. It then tells and inputs the ip to matchwatch (the program used for matches). It then allows mw to send commands to it like forcing screenshots similar to Counter Intelligence w/ missionary.

I tried using missionary to log onto an IW server, but it made me download a bunch of files. Halfway through I decided it wasn't worth it and canceled the operation. Now I have a bunch of unneeded files that missionary has to check. Is there an easy way to get rid of them? Or do I have to do it manually?

just go to your mohaa/main folder and delete them manually