Toad used to check if those objects exists by looking for the synonym in DBA/ALL_SYNONYMS, and then, if they were found, look for the actual object in DBA/ALL_OBJECTS. The problem with this approach, is that it's very slow for some users, and there were a lot of complaints about connection times being too slow
Considering that we know they are not really a problem (such as someone trying to hack, etc), Toad Team asks you, if it's possible for you, to "ignore" these records.