Noscript is an excellent tool to have and use.
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No, it's not a protocol, it's a program."
In *x/*SD, the basic set of standard clients often take the name of the protocol they work with. E.g. Telnet is accessed through the "telnet" programme, FTP is accessed through "ftp", SSH is handled through "ssh", etc. Makes sense, because it makes it self-explanatory; for example, to access a Gopher server using its respective client you'd open a terminal session (like what CMD is to NT) then type "$ gopher gopher.floodgap.com <enter>". Don't know if that's the case in NT, though, but that's how it is here.
There is (well, used to be) a secure file transfer program in the Debian repository called "sftp", that sounds like what you were describing, but don't know if it's the same thing or not (never had to use it, myself--I usually use GFTP to log in to my SDF account through SSH and transfer files with it. Yeah, I'll admit it, I'm a GUI weenie.) At least it's on my set of Debian 5.0.8 CDs, anyways.
EDIT:
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Here's what I use. Simple Socket File Transfer 1.0 - WhitSoft Development"
Ah, Yes, that's something different, then. Does that thing support secure file transfer? Doesn't look like it does from the page, but...
Here's what I use:
https://en.wikipedia.org/wiki/GFTP. I don't think there's an official NT binary, but it probably could be ported/compiled to run on it.