One very very important thing to remember is, only make one adjustment at a time in a 24 hr period, otherwise you have no idea which changes helped and which hurt the situation. Adjust only the bubble count or the drip rate but not both in the same day.
Using a 2 part or other method, get your calcium and alkalinity at the desired levels then start your reactor and make single adjustments until you get it dialed in.
The specimen container has a lip for hanging on the side of a tank on it so will not fall off. The small amount of effluent in the container is not enough to effect tank pH even if it did unless its a very small system. The idea with suspending the probe over the effeluent like this is I am monitoring and controlling the reactor and not the display, they are really independent of each other.