For your electrical, i would suggest switching out those 2 wet cell batteries to, agm batteries, they will like the constant charge and discharge better. Look into xs power, kinetic, deka, shuriken, stinger, etc.
diesels usually have decent size alt for stock, cause their starters draw alot of power to crank the engine. I believe its right around 140 amps correct me if im wrong.
welcome to the forum, becareful when you go off roading about getting into deep mud holes and water getting into the jeep. Thats my only problem, i have so many drain holes and no doors that i dont want to put a system in my jeep lol.
Only way to learn is to drive one, every car is different. Ive learned when i was in 6th grade, but tryed to drive one couple months ago, i did alright. Then my buddy let me drive his car to school for 2 months 5 speed then i just learned from that, ive always had buddies with manuals.