I don't understand what you did either.
Let's go over everything to be sure you have it hooked up correctly.
First the alternator.
Voltage read at the alternator output, the battery positive terminal, and anything connected to them should be at the same voltage.
Voltage readings are not a measurement of charging.
When we measure voltage and it is higher than the battery's internal capability, we can infer the alternator is working and if the battery needs recharging it is sucking power from the alternator to do so. The ammeter shows whether current is flowing to or from the battery. If the system is between 13 and 15 Volts, the battery will only draw power (seen as current flow on the ammeter) until it is recharged.
You can put a piggyback on each the ballast terminal and jumper them together or you can leave them alone. It doesn't matter. I don't know what's in MSD's current instructions. Older ones were pretty clear.
Piggyback terminal. Put one on each side and a jumper wire between.
If you need to go back to your points distributor, just remove the jumper.
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Autotronics Instructions for MSD 6 Series
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I don't think MSD is still supplying the terminals and plastic isolators pictured above. If they are, great. If not, that's OK too. It was done because that way because the 505 and early 6 and 7 MSDs would somethimes die suddenly and this provided a quick means to use factory system or a second box as a backup.
Lets go over the connections on a '69.
Power to run the MSD and charge the capacitor needs to come direct as possible from a power source.
Shown in the diagram as the direct to the battery, but the stud on the solenoid or the alternator output stud are also good locations.
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Take the ignition run wire off of the coil and connect it to the smaller gage red wire. This tell the MSD to turn on.
Take the signal wire off of the coil negative and attach it to the the MSD white trigger wire.
Connect MSD orange wire to coil positive & MSD small black to coil negative.
Make sure none of the connections touch ground.
The MSD does not care if there is a resistor in the power on signal. It draws very little current.
The coil primary is now fed by the MSD. So the resistor is not needed as a current control for the coil.
So you can tie the ignition run and start circuits together if you want - or if the resistor is broken.
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The pair of blue wires on the ballast resistor are also part of the charging system. Those connections must be in top condition.
One comes from the key in Run position. The other goes to the voltage regulator which decided how much current to let through to the alternator rotor.
