Really open to all gens.

What do you do to water proof your electrical connections, battery and/or alternator?

With spring coming soon to the mountains, there will be water.

Unless you expect to completely submerge it, most of the items should be fine as is--most manufacturers do quite well sealing their connections, etc.. The biggest concern is your air intake, not the electrical stuff. Just keep a can of some sort of electrical spray handy--if you dunk something, open it up and spray it out, let dry, and drive on. Intake mods have the biggest potential for disaster, as nearly all cold air intakes are susceptible to water ingestion. Best bet there is a snorkel.

I everyone keeps telling me that, but my experience tells me otherwise. Last year I fried a bunch of ground wires and my alternator going through water.

As for the snorkel, I am trying to come up with a ghetto snorkel.

May have been a freak deal, or the alternator was ready to go anyway--I've seen engine bays coated in mud and water, and the only issue was the the distributor, which we pulled the cap and sprayed, and it cleared out. There is an electrical grease that you can put inside connectors that helps keep water out. Also, check your boots and make sure they're not cracked or rolled back, exposing the connectors. You can't really cover the alternator, as it needs air to flow through, and usually handles splashes fine. When doing your own snorkel, just be very careful to get everything sealed well--there's a lot that goes into the engineering of these (flow characteristics, sealing, filtering), and I'm sure it would be easy to end up with a less-than-desired result. Best of luck!