I have followed these instructions for several years, with good results, with both OEM, and 3rd party batteries. I have also "not" fully followed these instructions and had decent results.
From the Seidio website for the Note's extended battery:
SEIDIO | Innocell Super Extended Life Battery for Samsung Galaxy Note
"In order to obtain the full capacity of your Seidio battery, we highly recommend that you leave the battery/your phone on the charger for an additional 2-3 hours after the charging indicator turns green or the battery status shows full. Continue for 5-6 charging cycles for optimal performance."