* Lambda analog power supply, picked up from a sale of a deceased ham operator's equipment. Figured it might come in handy here and there - now it's the single most used supply on the R&D bench.
* Little (~4 inch) wire enclosed table fan with tilting stand, from the same source. I already had a Boxer fan that I'd wired up with a suicide cord decades ago for dissipating solder fumes, thought I'd maybe formalize that a bit. It's now a permanent fixture on the soldering bench.
And if I might expand your definition a bit, to "Tools you thought you'd use once/for a short time, but ended up being indispensable":
* Case 580SK loader/backhoe, purchased to build a 140ft long x 16ft high x 6ft thick retaining wall and backfill the ~5000 ft3 of fill behind it, to build a backyard when my son was born. Thought I'd finish that project and sell it. Turns out once you own a loader/backhoe you can never sell it... the projects it makes possible are endless. Since that wall it's helped rebuild a boathouse from the footings up, build a new section of boat dock, build a two-vehicle carport (including acting as a crane to lift the crossbeams), build several boulder retaining walls, cut in a septic system, repave parking areas, keep our neighborhood's system of gravel roads level, and snowplow that same system of gravel roads in the winter (we live at the very end of the road, so guess who is the most motivated to keep the road clear?). Add to that the countless times when neighbors had an emergency and without "the machine" (as we call it) they'd have been forced to call and pay for help. We've pulled RV's out when they've ventured down the wrong too-steep driveway, cut a path for the Post Office vehicles when the other government agency plowed them in, and most recently helped the local church camp fix their water main when it burst several feet underground.
* Hitachi Rotohammer and diamond coring bit, purchased to put a fence on the top of the aforementioned retaining wall. It's amazing how often folks need to cut holes in concrete.
* Lulzbot Mini 3D printer, purchased to expedite the development of a custom injection molded potting enclosure for a PCB. I figured it would gather dust afterwards, but it's since been used to develop an entire second such enclosure too. But probably the most useful application has been the creation of tooling fixtures for use in production of our products. When the Production department needs something to be spaced just so, or held in a certain position, etc. we just crank out a 3D printed jig that holds things in the proper alignment. If they need a dozen (or in one case, 100!) duplicates of such a jig, we just load up the filament and turn it loose knowing every one will be the same. This sort of tool building used to take a lot of time and money, but now it's almost fun to whip up a design, tweak it a bit, and then see the smiles on Production's faces when we make their job SO much easier.
I'm sure there are more, but those are the first that spring to mind. Great idea for a thread!