Your assuming however that the mic and preamp are imparting a tonal coloration of the measurement. Now in some cases that is correct, and its done on purpose because not only do we want an IR of a certain speaker, but we also want the coloration of a bunch of different famous mics. However, you can also use things like a very linear/transparent power amp, neutral mic, etc, to take a lot of the coloration out of the IR, basically make it just the speaker. Also, lets not forgot that not every guitar speaker has a ton of coloration. There are some guitar speakers that are pretty much as flat, over a given range, as any PA speaker.
I think that with the right IR, some high and low cuts, and the right FRFR speaker, say a Xitone with a single 12", you can get a sound pretty darn close to a 1x12 sealed cab, with a flatter guitar speaker. Its not going to be exact, but I for one don't think I could tell it apart.