My rule of thumb is: if you need to generate text, then use a templating language if the dynamic part is much smaller than the already present static part of the text. I use Template-Toolkit for a lot of text generating, not necessarily HTML. Often it's just existing Makefiles or mapserver files or crontabs or some configuration files, which just need minor tweaks when running in different environments. So I can leave the files nearly as is, put some templating directives in it, and do not need to wrap it in a perl script.

Using a templating system is not necessary for the separation of concerns (layout vs. logic). If you're fine with generating html by perl code, and you really don't need any HTML coders to create the html, then do it so! But do it in a different function or module than the code doing the logic. This is enough to separate logic and layout.