I was wondering if running MQ2 with the map feature only is detectible in any way. I know some people are going to say "they can tell if you are running straight to rares up in the zones, calling camps you aren't at because you can see a rare is up, ect", but that is not what I am asking. I just want to know if it is detectable by having it running.

If you play on P99 then yes.
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To be continued...

Any server that cares about detecting MQ2 can detect MQ2. Any server that cares about detecting MQ2Map can detect MQ2Map. It's always best to follow the server rules. If you don't like the server rules there is most likely another server with rules you like.