no, it's still that way in v2-rcX iirc.
Now, the thing is: what's the difference between stopping and pausing?
the only difference is that when stoping, sopurces are dropped, whne pausing, they aren't.
So, I see no reason for haveing aMule behave on the way "only resume paused files".
Mine is just a presonal opinion but well...
Greetings!