Yes you can do that but to maintain them, I would keep them connected in parallal and use them both so they receive the same charge (as a bank) and remain in the same condition, hopefully. If there is a reason you need to pull one, do it but one could possibly act different later and affect the whole bank. In other words, your charger will treat both batteries as one when you bring it back in the system so they should be equal for the charger to do it's job correctly.
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