I would say that this is a false dichotomy. If said organizations are bigoted but legal 1) and 2) can co-exist peacefully if the app/service makes their value statement very clear from the outset about what sort of organizations they want to serve. It is the sudden suspension of an app or service based on personal decisions that I think is unprofessional.
To give a better example of why this would affect you as a third-party user not directly involved in the debate -- imagine you use a Mint-like personal finance app on your Android phone on a day-to-day basis. Now suppose Brendan Eich becomes CEO of Google, and the app writers pull their app from the Play store, and revoke API access for all Android devices. Would you be okay with that?
I would be ecstatic if the businesses I chose to deal with had such principles, yes, and would gladly join their boycott. We are all involved in the civil rights "debate", whether we like it or not.
To give a better example of why this would affect you as a third-party user not directly involved in the debate -- imagine you use a Mint-like personal finance app on your Android phone on a day-to-day basis. Now suppose Brendan Eich becomes CEO of Google, and the app writers pull their app from the Play store, and revoke API access for all Android devices. Would you be okay with that?