I've had the same issue, concerning long output. What I do is just hit enter a bunch of times to create a visual break between the output of the last command and the next command. It stands out visually, then, when you scroll back up.
Alternatively, you can use the unix 'clear' command or the AbsoluteTelnet 'Options->Reset Terminal' to clear the screen.
There's even the possibility to use the 'Options->Find' command to find some piece of text that's unique in your prompt string. For example, my prompt string includes my username and hostname like this: '
bpence@gateway' as well as the current directory. If I use the Options->find on the text '
bpence@gateway', not only will it highlight all of my prompts for me in bright blinking red, but now I can use the find previous and find next (alt-pgup and alt-pgdn) to quickly page to the beginning of each command I entered, regardless of how many there were or how big the output was.
Do any of these options fit your needs?
Brian