e46 has a nicer exterior, nicer interior, bigger back seat and trunk, and is MUCH easier to work on.
e82 is lighter and stiffer chassis.
I sold our e91 and replaced it with an e46 wagon primarily because I couldn't stand working on the e91. My brother sold his e82 for a similar reason.
Any ~20 year old car is going to require some upkeep at this point. I'd get the e46 over the e82 just for ease of work.
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2005 M3 Coupe, 2004 M3 Wagon, 2001 M5 Sedan, 2008 M5 6MT Sedan, 2012 128i M sport
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