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Are the fish acting nervous, darting at the slightest movement? Or, is it that they seem afraid to come to the surface? The nervous darting would cause me to be concerned water chemistry was off in some respect. It could be that the biofilter is cycling and you have some ammonia/nitrite issues. Even slight amounts of either can produce nervousness. When ponds are re-done, it is common that existing overhanging trees, shrubs etc. are removed or trimmed back. The change in surroundings, exposure to more sunlight, etc can cause nervousness. You might try adding something to provide cover. Some folks use a floating styrofoam sheet or the like for the fish to hide under. But I do not think it necessary unless they are jumping.
Last year I posted a similar question. Hurricanes that came through eliminated the tree cover, exposing the pond to full sun. I tested everything. I actually had better water quality than when the leaves were dropping in all the time, but nervous fish would dart across the pond for no reason. I was advised that it was likely just a matter of adjusting. I did not quite accept that, and kept testing, etc. to try to find something wrong... stray electric current, some new additive in the tap water. Never found anything. It took about six weeks after the loud noise of sawing, heavy equipment, etc. left the neighborhood that they were back to normal behaviors.
Good luck!
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