My top 3 hikes are actually 3 7-10 day packpack trips.
I guess I'd pick these from where you said:
Upper Pines:
- Mist Trail
- Yosemite Falls / Eagle Peak (very long hike)
Crane Flat:
- Tuolumne Grove
- Mount Hoffman (off trail but was highly used so should be no problem)
- North Dome
Tuolumne Meadows:
- Glen Aulin to Return Creek (long... at least go to Glen Aulin)
- Budd Lake xcounty over to Upper Cathedral and back out
From Glacier Point... Taft Pt to Sentinel Dome and back... very nice
If you want alot of opinions post your question on:
yosemitenews dot info/forum (the dot is a . of course)
Enjoy, there is not a bad hike in Yosemite! It's all good!