Hmmm...(he thought evilly)
What if the duplicate came online, and decided to overthrow the ship (say a power surge, or a radiation leak altered the program...Hmm, could be another Kirk/Kirk Riker/Riker moments
).
Variant to the above: what if he starts losing component of his program to the duplicate (the duplicate wants to 'live', and begins stealing what it needs to impersonate and survive). "Doctor, if you can't stop the bleeding, he'll die!" "I...I can't...remember...how..."
Likewise, how much memory does the EMH take up (especally one that 'learns')? So if he backed himself up each time...ever thought about what happens to a computer running multiple operating systems
things either a) go very slow, or b) crash.
Basically, I could see the Capt. putting his foot down ("Memory allotment is too high...lose some things, like Z-G baseball")
Also; the entire computer core need not suffer; only the area that contains holo-info need be damaged.
Hope some of this is useful.
...and that's about the time it hit the fan...
Truisms I know:
1) Marvel is NOT better than DC (nor should EVERYTHING be ‘ULTIMITED’),
2) D20 is NOT the best gaming system out there (nor should EVERYTHING be ‘crammed’ into it),
3) And No matter how ‘THEY’ dress it up, Regardless of how ‘THEY’ title it, and even if ‘THEY’ say “BASED ON…”; “ENTERPRISE” IS NOT STAR TREK!!!
4) 'Reality' T.V. ain't 'Real'