Hope you get that sorted out.
I replaced my original transmission from a used florida trans, and it's been going strong for 5 years now, touching wood. But really hope you get the toy remanufactured, it's really the best choice.
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for the suspension bushing, have you looked at these?
energy...
They sell as kits.
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as for the lower ball joints, there are a few oem genuine toyota kits on ebay like this
Toyota 1996 - 2002 4Runner Lower Ball Joint Kit Set Genuine OEM OE | eBay
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as for suspension:
for the rear springs, I went with OME heavy duty, rear monroe shocks and front monroe strut set, both in the top quality I could get a my Car Quest auto part. very satisfied so far and pretty sure every of these components are readily available still.
So everything beside the trans, you should be able to get and do the work while waiting for the big part