Nope, the exceptional tag on the pen itself doesn't give anything but more uses, as Gwendar mentioned.
As far as I know the only thing that actually enhances the quality of inscribed items, in terms of possible properties, is degree of magery skill in the case of crafted spell books & Scrapper's.
Some things that make the actual process of inscription more effective and less tedious:
Talisman - to increase success chance
Mana regen armor (to give more mana during scroll production)
You can make "affordable" medable leather armor mana regen sets with spined runics. Since the set is going to just be for inscription, it is even easier because the resists don't matter. (If you don't have one, you might check with Patty Pickaxe a/k/a Hannah Hellfire on the forums as she was burning spined runics recently).
I advise storing such crafting aids in a secure spot in a house and only using them there.
-Skylark