I am the original author of the posting on Ubuntu-users german forum.
You are absolutely right that I am having the exact same issue as you do.
As a workaround I did a rollback to the 4.4.0-79 kernel on my colleagues laptop and all seems fine so I am pretty sure now it is the linux-kernel issue.
I initially tried to create a bugreport on launchpad, but sadly it would bail out with some strange error-code upon myself trying to login.
What surprises me the most is that there were hardly any resources out there(google search almost yields nothing) regarding the 4.4.0-81-kernel and eclipse issue when it happened. Were we three the only JAVA developers out there using Ubuntu 16.04 with eclipse doing their suggested ubuntu linux-kernel updates on a regular basis?
Well back to the issue itself, a kernel update just popped up some minutes ago. I went and installed it. Result was just as I expected: updated 4.4.0-81-generic from today and eclipse is still crashing, so much for that. I have also tried Raven's suggested fix increasing the stack size using
and it seems to work fine with my eclipse mars as well as neon from eclipse.org.
Luckily I just happen to have to do some other stuff right now and do not need my eclipse installation for now. If I did, I would also roll back to the previous kernel 4.4.0-79 as I do not like tinkering with the system stack size, even if it seems safe here.
So my suggestion for Ubuntu 16.04 LTS users is: Rollback to 4.4.0-79 and wait for a working kernel as the patches already went upsteram and there seems to be a working kernel, as written in the last posting on: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=865311.