I'm thinking of using "Intermediate Bulk Containers" with this mod. It essentially creates tiers of barrels with different types. Would I be able to clean them in this same process as regular barrels?
Hm, I'm not sure, depends on how the other mod works, if it replaces the default barrels, maybe.
If they're custom objects then no, this only searches for recipes using the default barrel.
Though it probably could support it with some code.