DY: I can’t speak for B&H. I suspect they were advised or received a Psak to be more Machmir
Nor can i speak for them, but my conjecture is that they were advised to do so not because of concern for actual masa umatan issues, but for reasons of maris ayin/zilzul Shabbos, as a company which is well known to be owned by Jews.
In the process, they are zoche to make a big kiddush Hashem.
BTW, even if the money is deposited on Shabbos or Yom Tov, what is the issue, since it wasn’t specifically requested? Would I have a similar problem if my bank deposited an interest payment into my account on Shabbos/YT? If the government deposits my tax refund on Shabbos/YT, do I have to give it back (or better yet can I not request it as an automatic deposit, but rather, must ask for a paper check?