That explains it.
I know you put great effort in this but.....There is no good ground in your project. I can see you have more grounds than most people. There is a ground on each side of the ICs. The UC3823A is connected to ground on both the right and left side of the IC. It is a long distance from the left to the right side. The IR2110 has one ground connected to the UC3823A's ground but the other ground has a long distance. The power parts are too far away.
You are running slow, 40khz, but these bread boards are not built for high current, high voltage and fast edges. I think ground bounce is part of the problems.
I know you put great effort in this but.....There is no good ground in your project. I can see you have more grounds than most people. There is a ground on each side of the ICs. The UC3823A is connected to ground on both the right and left side of the IC. It is a long distance from the left to the right side. The IR2110 has one ground connected to the UC3823A's ground but the other ground has a long distance. The power parts are too far away.
You are running slow, 40khz, but these bread boards are not built for high current, high voltage and fast edges. I think ground bounce is part of the problems.