There is a trophy called "Cooper Clan Cosplayer" that the player can achieve by wearing a specific combination of items. The required items to be worn are:

• The Crooked Kama headband.
• Gosaku's Armor with the Ocean's Guardian dye applied.
• The Sly Tanuki sword kit.

The trophy and items worn are all a reference to Sly Cooper.

A sword kit called the "Sly Tanuki" can be found at the Iwai Village Pillar of Honor. The name and design of the sword kit is a reference to Sly Cooper. The sword kit's description reads: "For the samurai who knows neither friend nor foe... only destruction." is a reference to a quote from Murray, one of Sly's gang members. He tells Sly that he hopes his entrance did not cause him harm, saying, "The Thunder Flop knows neither friend nor foe, only destruction."

Located atop the Jogaku Temple in the Kamiagata region you can find a piece of vanity Gear called the "Crooked Kama Headband". The headband shows the signature weapon of another Sucker Punch Productions character, Sly Cooper.

After completing the game, the player will wake up in Jin's home where a table can be found with a multitude of origami figures referencing several IPs and studios that contributed to Sony's success, including:

• Gran Turismo with a red sports car.
• Horizon Zero Dawn with a Longneck machine.
• Ratchet and Clank with Ratchet's head.
• Days Gone with Deacon's motorcycle.
• Shadow of the Colossus with Gaius the Colossus.
• The Last of Us with a guitar.
• God of War with Kratos' axe.
• Concrete Genie with a paintbrush.
• MLB The Show with a bat and baseball.
• Dreams with an imp wearing glasses.
• PlayStation London Studios with its own logo.
• Kojima Productions also with its own logo.

As you progress through the story, there are a few castles and areas which become blocked off to the player after finishing the questlines associated with them. However, there is a simple-to-perform glitch that allows the player to access these areas again. While on horseback, the player must back their horse as far as possible into the gate of a blocked building and fire a bomb arrow at the ground in front of them, this will cause the player to fly back and clip through the gate with ease.

As of August 2020, an interesting glitch could happen after performing a certain killing blow. Sometimes after defeating an enemy there is a chance that they will start crawling around until the player finishes them off. After performing a beheading kill on your foe, a technique meant to be a killing blow, there is a glitch that can happen which causes them to still crawl around on the ground as if they were defeated in a normal fashion. It is currently unclear if this glitch has been patched out since.

Located behind the Speak No Evil monkey statue on the island of Saruiwa, the player can find a painting of a hand with an image of a Pagoda in the palm. This is a reference to a symbol/graffiti of a hand that's found in Infamous: Second Son as well as the cover of that game's collector's edition.

On the southwestern island of Saruiwa of Iki Island, if the player follows a certain path up on the way to the monkey shrine, they can find a small painting on a rock wall of a two-headed bird in the shape of a star. This is a reference to the graphic on the back of Delsin Rowes jacket and the symbol for the Karma system used in InFAMOUS Second Son.

Located near the See No Evil monkey statue on the island of Saruiwa, a wall painting can be found depicting a man with a two pronged sword and lightning powers. This is a reference to Cole MacGrath, the protagonist of the first two games in the InFAMOUS series.

On Iki Island underneath the Shrine of Shadow, a small cave can be found containing some supplies and a canvas painting on a table. This painting depicts 3 animals: a hippo, a raccoon or tanuki, and a turtle. This is a reference to Murray, Sly and Bentley from the Sly Cooper series.

On Iki Island, if you follow the Eastern stream of Kitsune Pond, you will come across a small climbable waterfall with a secret entrance behind it. Once squeezed through, the player will find the "Demonic Archer's Mask" and art on the wall to the left depicting Sly, Murray, and Bentley from the Sly Cooper series in a traditional Japanese art style.

A sword kit named "The Stonecutter" can be obtained at the Zasho River Pillar of Honor. Its description reads: "Humble, but more powerful than a prince". The sword name and description are possibly a reference to a story by the same name contained in Andrew Langs' The Crimson Fairy Book. In the story, a humble stonecutter wishes to be turned into many things that hold power by a mountain spirit, the first of which being a prince. In the end, he wishes to be changed back to his original form realizing that he is satisfied living as a humble stonecutter.

After the game's release, Nate Fox (game director) and Jason Connell (creative director) were appointed as permanent ambassadors of tourism for Tsushima Island in Nagasaki, Japan by the Mayor of Tsushima, Hiroki Hitakatsu.

In September of 2020, a typhoon toppled a torii gate at the Shinto Shrine of Watatsumi on the Island of Tsushima. A few months later in November of 2020, a priest from the shrine, Yuichi Hirayama, created a fundraising campaign page to help rebuild said torii gate. Fans of Ghost of Tsushima flooded the campaign page and smashed the goal amount of ¥ 5 million Yen (about $48,000 USD) eventually hitting over 20 million Yen by the end of December 2020. As of now it is unknown whether the gate has been fully rebuilt or not, as updates on the crowdfunding page were only viewable to supporters, although it appears to have gotten far enough that the last supporter update headlines in 2022 concerned the construction of a memorial monument and nameplate.

In response to Ghost of Tsushima's popularity, Nagasaki Prefecture of which the island of Tsushima is governed under, created a website to help encourage tourism to the island. It explores historical sites that show up in the game, local foods, and activities to partake in on the island that also involve locations depicted in the game.

A sword kit named, "Ōmukade's Revenge", can be obtained by completing the mythic tale "The Spirit of Yarikawa's Vengeance". The design on the sword wrap depicts a coiling giant centipede. This is possibly a reference to the Japanese folktale of Tawara Tōda Monogatari in which a giant centipede (mukade or Ōmukade in Japanese) yokai terrorizes a kingdom.

The Kidafure Battleground located at the center of Iki Island contains a few overgrown buildings. These are based on a few of the replica buildings placed around the Harunotsuji Archeological Museum located in the real Iki Island in Japan.

Located in the Southwest region of Iki Island is a rocky island called "Saruiwa", which translates to "monkey rock", the word 'saru' meaning monkey and the word 'iwa' meaning rock. It is named as such because the rock formation resembles a monkey. This island is also named after and based on the Saruiwa rock formation found on the real Iki Island in Japan, though it should be noted that the in-game location and real-life location do not match up geographically.

In an interview with Nate Fox, Ghost of Tsushima's creative director, he said that:

"The game was definitely scripted to provide more storms as you do things which are extremely Ghost driven".

This is referring to the change in weather that can happen throughout the game, becoming more stormy and violent as Jin uses more "dishonorable" Ghost techniques over his traditional Samurai techniques. This adds to the theme of Jin losing his way as a samurai to protect his homeland of Tsushima.

Located atop the Omi Monastery temple in the Toyotama region you can find a piece of vanity Gear called the "Band of the Second Son". The design is reminiscent of the beanie worn by Delsin Rowe, the protagonist of another Sucker Punch production, Infamous: Second Son.