I'm almost certain now the problem is not in the trough.
Reasons -
When i watch the balls in the trough run down after the 1st one pops up, it is almost instant - the others do not sit in any divots and take a while to roll down.
I swapped the whole trough (trough, coil and both opto boards) from my Indy into the ST TNG and it did the same thing - this indicates to me the problem is in the programming or wiring...maybe?
I also put three extra balls in the trough as soon as it popped the 1st one up - it then threw 5 into the shooter lane.... this tells me the machine does not like any more than 2 balls in the trough at any one time????? is this right? (there should be 4 in the trough at the start then 3 once one is in play)
Strageways; I Checked drop target - it resets OK
All opto's work perfectly on the switch edges test - both open and closed
I don't really know where to start looking elsewhere though.....