I assume you are working with the latest Webclipse 2017 CI 3b release.
Are you working with Neon 1 or Neon 2 (4.6.2)?
Can you please send us the full .log file located at workspace dir/.metadata/.log for further investigation?
Attached is the screenshot for your reference. If the path in the TypeScript page is different, then please use the same Node.js path you selected in the Runtimes page and check if you are still seeing issues.