The starting point, Rubha Hunish has high columnal cliffs where Peregrine Falcons can be sometimes be seen. They often prey on the numerous nesting seabirds which include Shags, Kittiwake and Fulmars. Descend to the lower section and head to the west side where there are sea stacks and high cliffs with good views down onto the nesting birds. Puffins can sometimes be seen just off the coast but more common are Gannets fishing off the headland. The Hunish has been the summer home to a pair of Great Skuas for the past few years although they have yet to nest and breed at this site, which does mean they tend to be less defensive of their territory than normal. Rubha Hunish is also a great spot for whale watching with Minke whales often spotted, particularly in July and August in the area of turbulent water off the most northerly point. Schools of Dolphin and Propoises often pass by but are less likely to hang around like the whales. Seals often add to the mix here. There is evidence of otters, look for the distinctive, small, bright green grassy mounds fertilised by spraint, which are used to mark territories. The bay on the east side of the Hunish as you come down the steep path from the top of the cliffs is the most likely place to see them in this area.
As the Trail progresses and moves away from the coast up onto the Trotternish Ridge there are good opportunities to see both Golden and White Tailed (Sea) Eagles as well as Buzzards, Merlin, and Peregrine Falcons. From the escarpment of the ridge these birds can often be seen circling in the thermals below.
The unique geology of the area has made it important for the plants it supports including a number of rare alpines, the beautifully named Artic Mouse Ear, Mountain Avens, and Northern Rock Cress. Higher up where the going is boggier, there are many rare lichens, mosses and liverworts for the keen eyed to spot.
Portree harbour is home to a nesting Sea Eagle pair in the summer months and boat trips can be taken to see them. In addition there is an exhibition on these birds, including CCTV footage of the nest at the Aros Centre which is passed on the Trail at the start of Day Four.
Stage Four itself includes the chance to detour around An Aird from the Braes a good place for seabirds and also passing marine mammals and the obligatory seal.
Glen Sligachan is a good place to see red deer, although there aren't the big herds that you get in some parts of the Scottish mainland they can congregate in the corries here and can be heard roaring during the annual rut in October.
The coastal sections from Camusunary to Torrin provide further opportunities to see marine mammals and otters. The boat trips from Elgol go past a seal colony and people have also reported seeing whales, otters, porpoises and of course, seals from here. The woodland on the Elgol peninsula, which is rare on the island, is a haven for spring flowers and small birds.