I have both an iPad3 and e-ink and I definitely prefer e-ink. The number of pixels does nothing to reduce eye strain unless you're using a tiny font and you're not reading tiny fonts if you have a problem with eye strain. Retina looks pretty and helps with web browsing and magazines but for me personally does nothing to improve reading books.
When I bought the iPad I made a deal with myself that I'd give it a fair chance and I'd use it exclusively for one month. When the month was up I went back to e-ink. Personal preference though your experience may vary.
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