I am assuming your boiler is controlled via a Distributed Control System (DCS).
My recommended guidelines for your procedure are as follows:
As you note, a level absent in the gauge glass means it's either full or empty. The first thing you should do is check the level indication in DCS - not knowing your boiler, I can only assume your DCS utilizes more than one transmitter to confirm boiler level.
If the DCS level is acceptable, check the gauge glass valve positions and perform a blowdown of the gauge glass.
If the DCS level is indicating high, visually check your steam drum level control valve - if open, manually isolate it. Use bottom blowdown valves to carefully lower the water level. Note: if water has been carried over into the steam line - trip the burner(s). Investigate the source of the problem and make repairs as required.
If the DCS level is indicating low, shut down the boiler immediately, but allow the FD fan to continue running. Isolate the feedwater to prevent flow into the boiler. The boiler must be cooled before feedwater is re-admitted - cooling time is dependent on the severity of pressure part overheating. If the boiler was firing for two minutes or less just below low water cutout level (if equipped with this safety feature), allow at least two hours of cooling followed by a slow introduction of feedwater. Conservative decision making should be employed (the longer the boiler is fired on low level, the more cooling time is required). Investigate the source of the problem and make necessary repairs. Note: be cautious when restarting the boiler and check for pressure part leaks.