Sorry, not trying to be rude, but can you explain exactly what the issue or damage is such that dealer says you need to replace the long block, i.e., the major mechanical part of the engine?
Misfires can come from a bunch of different causes, from as simple as either the coil pack not being fully seated onto the plug or the connector plug to the coil pack not being connected properly, to various ECU issues. I have a ZFG 91+ Performance tune, and I haven’t changed plugs, didn’t see it as a requirement or recommendation on their site, but I do no see where they list them, which I hadn’t seen before.
Even if someone cross threaded and forced one of more of the spark plugs into the head, all you would need is repair or replacement of the head(s). Now, if in doing that the plug was damaged or broken such that part of the plug end up falling into the cylinder, ok, that would destroy things, but you would have felt and heard that immediately once you started it.
A tune would have to be pretty extreme and have been run hard for a long time, barring a manufacturing defect in the engine, to do any damage from, for example, over fueling or overheating it. If something wasn’t built correctly at the factory or was out of spec, ok, running a tune and putting extra stress on the engine could cause that damage to be seen soon sooner than without the tune, but that doesn’t sound like it is what you are saying…
Can you please provide details as to what exactly was damaged and anything you know about how it happened? Just (properly) installing spark plugs isn’t going to destroy an engine such that a “long block” requires replacement. It might run like crap, but “wrong” plugs won’t break anything.