Rochester and Western NY are home to a fair number of institutions and places which are appealing to free-thinkers and humanists.  They include:
Council For Secular Humanism - Amherst, NY

Robert Green Ingersoll Museum - Dresden, NY

Those of us in
SHoRA - Rochester, NY

Local "Atheist Meetup Group" at Old Toad on Alexander St. 3rd Tuesday every month 7pm.

Bertrand Russell Society (Greater Rochester Russell Set)

Rochester chapter of
Americans United (for Separation of Church & State).

Genesee Valley chapter of the ACLU.

Rochester branch of
Secular Organizations For Sobriety (SOS). 

Local TV, Radio, and Media:
City Newspaper

Listen to AM 950 for Air America,
Al Franken, etc.

Listen to AM 1370 for NPR (National Public Radio).  FM 88.5 runs NPR until 9 am weekdays.

"Free Inquiry" magazine is a must-read.  Published by CFI in Buffalo.

"Now" hosted by David Brancaccio (formerly Bill Moyers) on PBS.  Fridays 9 PM on WXXI TV-21

Secular or progressive historical figures from the Western NY region:
Frederick Douglass 

Robert Green Ingersoll 

Susan B. Anthony 

These aren't necessarily local but, they're still good...

Some irreverent comedy:
George Carlin.
"When Will Jesus Bring the Pork Chops?". (book)  "You Are All Diseased" (DVD)
Monty Python. "
The Life of Brian".  More a satire on believers rather than their religion.

Inspirational movies without the supernatural:
Touching the Void.  True story of 2 climbers stranded on a frigid mountain. Even though one realizes he's near death, there will be no last minute "conversion" for him.

Secular Books by scientists:
Carl Sagan's "The Demon-Haunted World".

Darwin's Dangerous Idea
by Daniel C. Dennett

Denying Evolution
by Massimo Pigliucci.

Critical examination of the Bible:
Skeptics Annotated Bible
Other web sites:
Humanist Network News (Albany, NY)