Yeah, do get a good quality check valve, preferably those that are designed specifically for Co2 systems (not those designed for air systems), it costs only a few dollars but will help to protect your Co2 equipment.
In your case, you don't need to have 2 bubble counters running at the same time, just remove the first bubble counter and only use the bubble counter inside your diffuser, then base your effective bps on that counter.
Note that as different setups and equipment generate bps differently, the bps you see is only for reference in your own tank setup.
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