Hi Krismo
Unless there is something seriously wrong with the installation of the gas lines, the carrier flow in the second (unused) column has nothing at all to do with the gas flows to the first (used) detector.
45 ml/min is higher than I would expect for make-up and will give you problems in igniting the flame, but you should not need to go as low as 10 ml/min. Check that the flow of hydrogen and air are correct, both as set on the GC and as actually delivered to the detector, and measured with a flow meter.
You can run with the makeup at 10 ml.min, but the problems that you describe are symptoms of other things being wrong, and you need to troubleshoot fully.
Peter