Fanny returned to Maine in the summer of 1855 in time to see her fiancé graduate from Bangor. They were married in her father's church on December 7, 1855. The newlyweds lived in rented rooms while Chamberlain taught Logic and Natural Theology and was given charge of Freshman Greek. In October 1856, Fanny gave birth to a daughter they named Grace Dupee, though the child quickly took the nickname "Daisy". The following November, Fanny went into labor three months early with their first son but the premature infant only survived a few hours. A second son was born a year later and after a few moments of anxiety, it was thought the boy would grow strong and they named him Harold Wyllys. Two more daughters followed - Emily Stelle in 1860 and Gertrude Lorraine in 1865 - but neither child survived scarlet fever to see their first birthdays.