Per mod commands?
 

Can I have one giant plugin, and have it check which mod is running and use the correct commands? or do I have to change it all at compile time

We only have one mod module written now called Cstrike, but there will be more as of the 0.2 and 0.3 releases.

I am pretty sure there is a function to get which modules are loaded, so you will be able to tell what mod the server is using.

Yea. Im wrote a bunch of commands for natural selection/mysql and am going to expand it to cover more of the mods I use
Im just using get_modname(modname,64)
I pretty much answered my question about two mintes after I posted