Are you claiming that running an app in an environment where it can access the internet directly counts as a vulnerability in Tor?

Yes, of course it is. Whether it's the Tor Project's fault or the user's fault is a contentious issue.

I disagree, Tor isn't a sandbox or firewall for your apps. If they make undesired network traffic then the vulnerability is in the app (and arguably, the environment it's running in).

Could you please tell me more about the other Tor vulnerabilities?

I'm not aware of known vulnerabilities in Tor itself that devs haven't mitigated, out of usability concerns or whatever. Generally, I consider the focus on Windows users, and the reliance on tweaking Firefox for security, to be vulnerabilities. Also the refusal to compartmentalize the Tor process from userland, either in VMs or in separate hardware. I mean, Whonix has been around for years, and it's not featured (or even mentioned, unless you dig into the wiki) on the Tor Project website. And what about Qubes? Or Tor routers? I mean, they go after people for calling them that, citing their copyright.