Variety is absolutely the key for healthy turtles of any kind.
Mud/musk turtles are very forgiving in this respect but you should still feed them good things.
I feed high quality pellet foods for large tropical fish like cichlids or catfish. I also feed some of the better frozen foods for marine tropical fish that contain all kinds of algae, shrimp, clams, etc. Then, I will offer some live foods as well.
Many of the pellet foods and 'sticks' formulated for turtles are actually pretty lousy as a staple food. Feed them only as an occasional supplement.

As far as the bottom cover is concerned you can use larger aquarium river stones or 'Chattahootchee' type river rocks. These are fairly smooth and are mostly too large to be ingested.
I use pieces of corkbark wedged crossways in the aquarium for basking sites.

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