First, let me hahaha a bit
That sucks, I'm just glad my tanks are the same from both sides, bet I would have done that somewhen already. Think I'd turn it around as well, else it might annoy you for years. Well, I'm sure it won't happen to you a second time
About effecting the water parameters, has the tank been trough the nitrogen cycle yet? If the water parameters are fine by the time you go for it, I'd save as much of water as possible and keep the filters running in some bucket or so while working on it; then I wouldn't expect any problems really.