I hope this issue will have a proper way out.
Having third-party cookies disabled breaks all of my provider-hosted SharePoint apps, due to the fact that I'm performing client-side js calls using JSOM in them (which use SP.ProxyWebRequestExecutorFactory class to get past the cross-domain issue).
Recently lots of iOS users reported issues, due to the fact that third-party cookies have been disabled in their Safari browsers by default. It was not convenient for our users to have to manually update Safari's settings.
What is more, Google is planning to https://blog.chromium.org/2020/01/building-more-private-web-path-towards.html It basically means that all provider-hosted apps using JSOM will stop working in 2 years - this gives a very little time to react (when one has to deal with adjusting a number of applications). Frankly, I am pretty scared of where this is going.