Hi Angelo, normally I would say not to run a unit if it is malfunctioning, as if there is a leak on the suction side then you will be pulling air into the system. As you have already run the unit for some time in this condition, any damage has already been done. If you are very lucky, it may just be that an over-pressure relief valve has released some gas, and the unit will just need re charging. If the unit is no longer sealed then it will require new oil and a replacement filter/drier in addition to the necessary repairs.

When you take the chiller in for repair, try to explain the heat load you are using it with (600w+) and that you are running the compressor constantly for up to 12hrs (the controller would cycle the compressor so it would never run so hot). They may be able to tune the unit for a higher load and cooler operating temperatures which would be more reliable for you.