Wagstaff Extra 300
You may have a few problems.
Gregolot, move the ignition battery to the port side of the firebox opposite your ignition module that is on the starboard side. Saw the picture on your gallery.
I don't understand why you gained control after the plane took off. Maybe the receiver switch cut out and in. I have seen that happen when a pilot turns the transmitter off by mistake when taxing and losing control. A bad receiver switch will cause the same action. Also could be a bad switch in your transmitter.
A Bosch cap can't hurt as well as a PCM setup that you may already have.