I've also got a problem, I don't know if it's related to this.
I use Geany 1.29 and LXTerminal 0.3.0 on Lubuntu 17.04.
A simple code to test it:

#include <iostream>

int main()
{
	std::cout << "bla";
}

Pressing F9 to build, then F5 to execute results in:

I'm not sure if it's geany's fault.

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