No you shouldn't run. Just factor it into the calculation. You might want to join the company for personal growth, or because the cash compensation makes it worthwhile. 'Shady' (by which I suppose you mean anything greater than 1X) liquidation preferences should affect your expectation of the future value of equity/options, but you can't value options or equity at less than zero.
"(preferred shareholders) need to recoup the money they invested, but at that point you really just placed a bet on the wrong startup, nobody has been "screwed"."
As long as everyone understands the terms (i.e. as long as employees understand the liquidation preferences), then I agree that 'nobody has been "screwed"'. But in many (most?) cases employees not only don't understand the liquidation preferences: they aren't even aware of their existence because they don't have access to the relevant documentation.
A minor quibble: if you consider options/equity as part of employee compensation, then I see nothing special about preferred shareholders than means they 'need to recoup the money they invested', any more than employees need to recoup the time they invested.
'one "advantage" of common options'
Advantage relative to what?
- Relative to cash? Cash can buy baby food. Common options can't.
- Relative to shares? Shares don't expire, and don't require the owner to risk additional money in order for some benefit that may or may not come.[0]
[0] Ignoring tax implications, which vary a lot between countries.