I have a wavebox in my 90 gallon. The tank has a corner overflow. The wavebox is mounted slightly more towards the front of the tank on the same side as the overflow. The wavebox is cranked up to full power and the pulse is longish, so its on longer than its off I don't really have much in the way of LPS though. Most of my LPS are small pieces and are at the bottom of the tank.
Not really sure what to tell you, for me it was all about placement. I did manage to blow the tissue off one of my SPS colonies due to poor placement on my part. Those colonies that were having any issues were either moved or I moved the wavebox more forward until the wave action was less direct.
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