If you have two separate abilities that allow a reroll of a die, can they both be used? For example, if a ship has predator and is in range 1 of howlrunner, how are rerolls affected? If I roll 3 dice and 2 miss, I can use each ability to reroll 1, but if only 1 misses can I reroll based on predator and if it misses again can I reroll again based on howlrunner?

A particular die can only be rerolled once, but you can use multiple reroll abilities on the same pool of results.

So 3 dice with 2 blanks, you could use Predator on one and Howlrunner on the other. But with 2 hits and a blank, you could only use one or the other on the blank die.

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In all fairness if you have an allied Howlrunner near your Predator equipped ship and roll hit,hit,blank you could still use both reroll abilities; it is just that one of them would be getting used on a hit which is usually undesirable.

A ship can use any number of reroll abilities. However a single die may only be rerolled one time and there are some things which will prevent even that or other modifications. If you wanted a single ship example you could look at Han w/ Predator and having a TL on the target; he has three different reroll abilities that could be used and while triggering all may be possible each die can still only be rerolled one time.