Off the top of my head.... Eberlestock and Kifaru both have packs with MOLLE on the interior. Triple Aught Design makes a MOLLE insert to go with their packs. Also, Blue Force Gear DAP packs offer the same sort of internal organization capability but with hook and loop instead of MOLLE...
Maxpedition offers Velcro on the interior of many, if not all, of their packs. Of course, not as many accessories are offered with hook-and-loop attachment as there are with MOLLE, but you might find it more convenient for a bag's interior.
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