At least 2 SIG-Sauer P226 pistols in the case that was in the possession of Deputy US Marshal Edward Mars (Fredric Lane) are seen used by several of the characters throughout the season. In "Because You Left" (S5E01), Sayid (Naveen Andrews) carries one when he gets Hurley from the Santa Rosa mental institution. He also hides one underneath his sink. Sayid also disarms a hitman armed with a suppressed SIG, which is then held by Hugo Reyes (Jorge Garcia). In "The Incident, Part 2" (S5E17), Kate firing what is probably supposed to be a SIG Sauer P220, however the double stack bulge makes it more likely a 226.
In Season 5's "Dead is Dead" (S5E12), Benjamin Linus (Michael Emerson) uses a SIG-Sauer P6 in his attempt to shoot Penny. The utilitarian takedown lever on the left side of the receiver indicates that the handgun is the rougher West German police version of the P225, the P6.
The Beretta 92FS is also a prominent weapon used in the series. In Season 5, during their time travel back to 1977, many of the characters including Jack, Jin Kwon (Yunjin Kim), Sayid and Juliet Burke (Elizabeth Mitchell) are seen using the Beretta 92FS, nearly twenty years before this model was introduced!
The M1911A1 is seen in various models in the hands of numerous characters in flashbacks and flashforwards. Jack (Matthew Fox) is seen firing one in "The Incident, Part 1" (S5E16). Miles Straume carries one when he first arrives on the island. Richard Alpert (Nestor Carbonell) holds the M1911A1 in "The Incident, Part 1" (S5E16).
In Season 5's premiere "Because You Left" (S5E01), Kate is seen packing up her Jericho 941 "Baby Eagle" that was previously seen in Season 4's finale "There's No Place Like Home, Part 3" (S4E14).
Walther P38s are seen multiple times over the course of the series. In "The Variable" (S5E14), Kate (Evangeline Lilly) hands a P38 to Daniel (Jeremy Davies) when she and Jack go to the motor pool to get weapons, he is later seen holding it in the Others camp. Please refer to the Discussion section for a more detailed listing of the P38's use in Seasons 2-6.
A Remington 1100 is seen in the hands of Stuart Radzinsky, the DHARMA Initiative Head of Research while escorting Sayid with Jin and Sawyer in "Namaste" and "He's Our You". Mitch (Kevin Chapman), a Dharma Initiative security man that escorts Sawyer and Juliet to the submarine in "The Incident, Part 1" (S5E16). The shotgun is later seen in the hands of Sawyer in "The Incident, Part 2" (S5E17).
Desmond is seen holding a Remington 700 BDL when he's confronted by a time-traveling Daniel Faraday in Season 5's premiere "Because You Left" (S5E01). Miles Straume (Ken Leung) is seen using a Remington rifle in the Season 5 finale "The Incident, Part 2" (S5E17).
The Remington 7400 rifle is one of the rifles seen in the armory that was housed in the bunker known as "The Swan". During the Dharma purge in the 1970's, Sawyer is seen with the rifle, notably in "The Incident Part 2" (S5E16).
The Ruger Mini-14 is a prominently featured rifle in the series. In several episodes, the rifle is seen in the hands of "The Others". The characters seen carrying the Mini-14 include Sayid (Naveen Andrews), Jin (Daniel Dae Kim), Sawyer, Kate, and Lapidus (Jeff Fahey). Notably seen in "Dead is Dead" as well as the majority of Season 5.
An M1A is seen carried over the shoulder of an Other in "The Incident." The use of a muzzle brake rather than a flash suppressor (and the lack of a bayonet lug) helps differentiate the M1A from the M14.
The M1 Carbine is another one of the common weapons used on the island. Ethan Rom (William Mapother) holds one on a time-traveling Locke in Season 5's premiere "Because You Left" (S5E01).