I have the item in my possession now, but I did not see a peak scene. I recall Makoto saying something like "stop being creepy" or something.
Can I get it through chapter select? Is this the scene of this type, where I need an item at a specific time?
Its a still image fanservice scene that activates when you have the item at that time in the story. So if you didn't get it then, then you'll have to go back through the chapter select to do it again. The gifts and such don't change so long as you're using the same save file, so it should work.