I'm not convinced that IETester changes the underlying APIs correctly. Because of bad experience with "Multiple IE" simulators in the past I don't test on anything but the real install.
Yeah, I had trouble with those "portable IE6" implementations too. But IETester seems to be a lot closer to the real thing, at least as far as I can tell.
IEs4Linux might work for you then. It can install the original IE6, IE5.5, and IE5 under Wine. IIRC it uses a separate wine tree for each version, so there's no chance of the IE6 js interpreter being run in IE5.
I don't have access to IE5.5, would love to have someone test it.