It's a pretty simple swap. If you're trying to keep a low budget you can get #19 mustang injectors off of ebay for ~$40. They are the disc style, but I'm running them with no problems and I'm still on the stock chip.
I would highly recomend the starter jig set from Rodney. It's a bit pricey for a 1 time job, but it's worth it. If you want to save money there, you can probrably pick one up from a forum member. It comes with great instructions as well. You'll also need his oil pressure adapter.
The only other challange is if you have an auto tranny. You'll need to cut away some of the meat arround one of the bosses. Nothing major, about 20 minutes and an electric die grinder and you should be fine. You'll also have to drill out one of the bosses. The trick for these two steps is just to compair the new block to the old one when you pull it out.
If you're going with boost, you'll have to find a few alternative solutions, #17 injectors are good for a stock 3.4l, #19 will cover a fully modded 3.4l (I think the calculation was about #18.6 for optimal injectors), but I imagine with boost you'll have to go with more fuel.
If you want to get a quality short or long block though, I would suggest www.GopherEngines.com, their engines are in pristine shape, I was extremely pleased when my long block showed up.
There are also a few holes that will need to be plugged on the new block. I don't remember the sizes, but I had a good variety of rubber freeze plugs and old sensors on hand to take care of them
Get any gaskets you may need and other then that, you have everything you need. All your stock '88 mounts, wires, adapters, etc, will all work.
-Rick