Just ignore this problem, the PCB shop engineer will remove the silkscreen overlap the via holes. Not the whole silkscreen word, just the part is overlapped. So in most case, you still can recognize the silksreen word.
In the past, Engineer relies a lot on silkscreen to differentiate the exact components. Nowadays, most of us depends on PC to confirm the component parts. No silkscreen on some parts is not a big problem.
In fact, a big number of companies have cancelled silkscreen on the PCB. For instance, Siemens is a good example.