My plan is to just write the batch number on top. Although, I don't plan on having tons of different batches sitting around anyways because I lack the space.
Actually, one idea I had (job hunting, so a lot of free time, but no money to carry out the ideas) is to brand the glasses with your brewery name and then hang tags (http://www.staples.com/office/suppli...s_10051_SEARCH
) around the neck. That way you don't have to relabel each time you put a new brew in the bottle.
And idea for labeling the bottles was to use the glass etching stuff: http://www.instructables.com/id/Glass_Etched_Glasses/
I think it'd look cool and different, although may not show up as well on brown bottles.