Thanks for the excellent description of what you're seeing. Here's why this is happening. When HotkeyNet sends a keystroke with SendWin to a background window, the first thing it does is tell the operating system, "Please raise the target window to the foreground." Usually when a background program makes this request (HotkeyNet is in the background), Windows refuses to do it as a matter of design to prevent background programs from taking control of your screen and annoying you. So what the operating system usually does in this situation is blink the task bar icon (as you describe) to alert you so you can decide yourself which program should be in the foreground.
Normally, when SendWin is working properly, HotkeyNet plays a sort of trick on the operating system to force it to carry out the request. In this case, based on what you describe, the trick isn't working. Delays can't help because the problem isn't caused by time. It's caused by the operating system making a decision to refuse the request.
Glad to hear it.
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