Jim,
let me try to deal with one issue at a time. RTN is often caused by too much PO4 or, conversely, a sudden drop in available nutrients. If the coral is loosing tip growth, then this may be ODing on carbon, too high an alk (KH over 7.5) or HQI burning from the water becoming very clear (zeolith filtration) If the RTN is starting from the base, you have a nutrient imbalance, typically too much PO4.
Another factor that can cause 'burn' on corals, especially Montiporas, is not enough potassium (kalium) in the water. Now, this is often assiciated with ULNS and not clear why it should occur, but weekly water changes with a well balanced salt typically keeps this in cheque. One theory I have tumbling in the back of my head is the actual carbon dosing. We use various products, such as acetic acid, methanol, ehtanol, acetone, etc., which do react with other elements in sea water. We may simply be adding a free radical that binds the ionic potassium causing the dificiency. Or, due to imporved coral growth, the element is simply assimilated at a faster rate. I really don't know.
With ZeoStart2, one should not dose more than 1ml per 400l/110gals in any 24 hour period. More may cause burn or severe nutrient limitation (often the same thing). In general, once one has the PO4 and NO3 at the desired levels of 0.02 (PO4) and 2ppm (NO3), then one should half the Start2 (or vodka/etc. dosage) and keep monitoring the situation. If it remains stabile, then remain at this dosage. If it rises, then increase the doasage until this stops. Yes, this requires time and patience, but is the only reliable method.
The reactor flow is another way to control the bacterial population. Less flow changes the ecology of the filter, generally slowing the bio process. Optimal is, as you know, 100gph for one litre of zeolith. These are ball park figures and each aquarium will differ.
As to what supplement to use when, remaining with the basics until the tank is stabile is the best approach. Adding supplements will blurr the picture and may have deliterious effects. Other than Sponge Power and Coral Vitalizer, I refrain from supplements in new systems. Those two are used at max. half dosages. As the system settles, dosing can be tweeked.
When I see something strange going on in one of my tanks, I check the PO4, NO3, Calcium, Magnesium, Alkalinity, temperature and the salinity. If I find nothing wrong, I check the pH, as well. I rarely come as far as the pH. For me Alk and salinity are two of the most important parameters, other than nutrient levels. If the salinity is wrong, other readings tend to be as well. Remember, salinity is a concentration, not a specific amount. It is relative to temperature. I use a photometer, as I find this the most reliable. There are good hydrometers out there as well. I can't over emphasize the necessity of using good test kits and meters. One incorrect reading will change the whole picture. When in doubt, use another test kit, from a friend or shop.