OK, all types of Toy auto trannys have integrated chain drive t-cases, so if you went with a stock Toy auto, you would need to use the chain drive tranny, and toss you manual tranny (so some needy person here on the board). The 4 cylinder auto is weaker than the 5-speed, and the auto t-case is weaker than the manual t-case. So, you just took two hits in strength by this swap.
If you went with a strong auto tranny (like a turbo 350 or 400, domestic, 2wd), then you would need to buy an adapter to go between the 22RE and the tranny, and then one to go between the tranny and your stock manual t-case. Both of these adapters exist for $$$$.
Or, you could go with a complete domestic swap, put a T350 or T400 tranny in (4wd this time) with any number of domestic t-cases (check out the
Pirate Bible for some info on choices). This would require the engine-tranny adapter, and any other stuff for linkage, mounts, etc.
All three are expensive, require driveline mods, mounting mods, linkage mods, shifter mods, possibly electrical mods, installing a tranny cooler, blah blah blah.
You're looking at lots of time and cost.
Most people want to go to what you currently HAVE, so moving away from that makes things harder.
Oh, and I ain't dogging autos on the trail, I use one myself

I'm just dogging the 4-banger auto as a swap...