When comparing PuTTY vs hyper, the Slant community recommends PuTTY for most people. In the question“What are the best terminal emulators for Windows?” PuTTY is ranked 6th while hyper is ranked 12th.
Ranked in these QuestionsQuestion Ranking
Pro De facto standard client for SSH, Telnet and Rlogin
Pro Source code available
Full source available. Compile and modify it yourself.
Pro Built on electron, supports split panels and plugins
Pro Cross-platform due to electron browser-based foundation
Con Tedious logging/tracing
Its tedious to set up logging and tracing (e.g. for serial connections).
Con Lacks features
It is JUST an SSH client. There are many other options with built in X-servers, Multitabbing etc.
Con Can not save passwords
Anyway, you can use "PuTTYgen" to generate a key pair, then use "Pageant" to do a password-less SSH remote login.
Con No global settings
If you want to change a setting for all your connections, you'd have to do it individually.
Con No login scripting
Con Still maturing as of December 2016
Folks noticed some issues in the 1.0 release cited here.
Con Made with Electron
It uses a considerable amount of resources, compared to other offerings.