Place a tube trap at the gutter's exit point. The exit point is typically a pipe that meets the ground for allowing drainage water to flow to a municipal sewage system.
Check the tube trap at the end of the day for a trapped squirrel. Squirrels need to exit the nesting area for food and water. Commonly, squirrels will use the gutter system as a means of exiting and entering the nest.
Access the nest by climbing a ladder to the gutter area. Do not attempt to access the nest until the squirrel is safely caught. Squirrels can bite and injure a person.
Remove the nesting debris with a scoop shovel tool. Make sure that the tool fits within the gutter's width. Place the debris into a trash bag.
Visually verify that the gutter is clear. Check for any other nests along the gutter.
Install metal mesh across the gutter's entire top opening. Include mesh across any pipe openings. This will prevent another squirrel nest from occurring, as well as hindering debris build-up from falling leaves.