Yeah, you can seal them up no problem.
Most consumer battery packs come wrapped in a heat shrink tube, so you just need to seal the ends up, the best thing to use for that is electronics grade silicone sealant, (there is an acid in regular grades that eats copper), I have used Servicol which sets to a fairly hard rubber similar to regular bathroom stuff, and Kaufter which sets more to a gel rubber like a bike saddle, either will work with the kaufter being easier to get into nooks and crannies, but the Servisol being much harder wearing. If you can't source an electronics grade (which is very useful to waterproof the rest of your electronics too) for batteries with their thick wires, fish tank silicone sealant from a pet shop with its much lower acid content than regular bathroom/kitchen silicone sealants is fine for nickle cells and probably OK for LiPos too, just don't use it on your servo, RX or ESC with their thin wires and tiny PCB traces/SMT legs.
Paul Upton-Taylor, Greased Weasel Racing.
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