For the most part, Hurricane Isaac missed the eastern Panhandle and Big Bend of Florida.  However, the outer remnants of Hurricane Isaac spawned a couple of funnel clouds and tornadoes, and some coastal flooding did occur across portions of Wakulla, Franklin, Gulf, and Bay counties in association with the storm surge.
Significant erosion occurred across Franklin county with estimates of around $500K in damage from erosion from a WCTV news article.  The storm surge was measured at 3.45 feet at Apalachicola at 1200 UTC on the 28th with a total storm tide of 3.92 inches.  The storm surge was measured at 2.50 feet at Panama City at 1400 UTC on the 28th with a total storm tide of 3.50 feet.  Also in Franklin county, Water Street in Apalachicola flood with over one foot of water in some places.  Some flooding occurred in Saint George Island State Park with water passing the dune line and flooding parking areas.  Surf heights were in excess of 6 to 8 feet.
In Wakulla county, minor coastal flooding was reported in typical flood prone areas around Saint Marks.  Two to four inches of water was reported inside a few businesses in Saint Marks.  One vacant home experienced minor water intrusion around the time of highest tide in Shell Point.
In Gulf county, Indian Pass Road flooded around the time of high tide.  Saint Joseph State Park was closed due to water inundating the access road.
In Bay County, there was minor inundation of a few roads in downtown Panama City near 7th Avenue.  Water depth ranged between a few inches to one foot in places.  Flooding of roads was also reported in areas of Lynn Haven closer to West Bay.  Very high surf resulted in moderate beach erosion with surf heights in excess of 8 to 10 feet.

Funnel Cloud in BAY, FLORIDA
From 30-AUG-12 05:15:00 to 30-AUG-12 05:15:00 (CST-6)
Location: SOUTHPORT
Property damage: 0.00K
Crop damage: 0.00K
Reported by: Public

The public sighted a funnel cloud at Baily Bay Bridge on Highway 77 near Marina Bay Dr.

Funnel Cloud in JACKSON, FLORIDA
From 29-AUG-12 16:00:00 to 29-AUG-12 16:00:00 (CST-6)
Location: (MAI)MARIANNA MUNICIPAL ARPT
Property damage: 0.00K
Crop damage: 0.00K
Reported by: Emergency Manager

A funnel cloud was spotted near the Marianna airport.

Funnel Cloud in JACKSON, FLORIDA
From 29-AUG-12 16:14:00 to 29-AUG-12 16:14:00 (CST-6)
Location: GRACEVILLE
Property damage: 0.00K
Crop damage: 0.00K
Reported by: Emergency Manager

A funnel cloud was spotted near Graceville.

Funnel Cloud in JACKSON, FLORIDA
From 29-AUG-12 16:12:00 to 29-AUG-12 16:12:00 (CST-6)
Location: GREENWOOD
Property damage: 0.00K
Crop damage: 0.00K
Reported by: Trained Spotter

A funnel cloud was spotted just south of Greenwood moving north along Highway 71.

Storm Surge/Tide in COASTAL FRANKLIN, FLORIDA
From 28-AUG-12 07:00:00 to 28-AUG-12 09:00:00 (EST-5)
Property damage: 500.00K
Crop damage: 0.00K
Reported by: Official NWS Observations

Tornado in JACKSON, FLORIDA
From 29-AUG-12 16:12:00 to 29-AUG-12 16:14:00 (CST-6)
Location: GREENWOOD
Tornado F-scale: EF0
Property damage: 0.00K
Crop damage: 0.00K
Reported by: Broadcast Media

The broadcast media obtained video of a well developed and persistent funnel cloud with a brief tornado touchdown in an open area north of Greenwood and south of Dozier Road.  No damage occurred.

Tornado in HOLMES, FLORIDA
From 29-AUG-12 16:24:00 to 29-AUG-12 16:25:00 (CST-6)
Location: COBB CROSSROADS
Tornado F-scale: EF0
Property damage: 10.00K
Crop damage: 0.00K
Reported by: Emergency Manager

An EF0 tornado touched down in extreme northeast Holmes county along Kirkland Road.  Trees were blown down and uprooted, and the front porch was torn from a mobile home with some debris noted in the trees.  Monetary damage was estimated.

Storm Surge/Tide in COASTAL WAKULLA, FLORIDA
From 28-AUG-12 07:00:00 to 28-AUG-12 09:00:00 (EST-5)
Reported by: Official NWS Observations

Storm Surge/Tide in COASTAL GULF, FLORIDA
From 28-AUG-12 07:00:00 to 28-AUG-12 09:00:00 (EST-5)
Reported by: Official NWS Observations

Storm Surge/Tide in COASTAL BAY, FLORIDA
From 28-AUG-12 07:00:00 to 28-AUG-12 09:00:00 (EST-5)
Reported by: Official NWS Observations