You can read comics either through dedicated apps (such as the Marvel one) in which case the comics are formatted for the device and look gorgeous.
There are a variety of readers for generic PDFs (Goodreader being the best) and some that will read CBZ/CBA etc. For the compressed files I've only tried the free Cloudreaders app and it reads them just fine.
However, comics that are not specifically formatted for the iPad read through any PDF reader, can't compete with the ones that are in terms of looks and formatting.
The same thing applies to magazines read through, for example, the Zinio reader. Some of the mags are essentially reformated, interactive iPad versions and they look great but regular mags look as you would expect them to if you read them at Zinio through a browser--no better nor worse.
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