The area which later became Komoro Domain was repeated contested between the Uesugi clan, the Takeda clan and the Later Hōjō clan during the Sengoku period, changing hands repeatedly. After Toyotomi Hideyoshi annihilated the Hōjō clan in the Siege of Odawara in 1590, he awarded Komoro as a 50,000 koku holding to Sengoku Hidehisa. The marked the start of Komoro Domain. He was confirmed in his status by Tokugawa Ieyasu after the Battle of Sekigahara, and his son, Sengoku Tadamasa was transferred to Ueda Domain in 1622. Komoro was part of the holdings of Kōfu Domain from 1622-1624, but was revived as an independent domain for Matsudaira Norinaga from 1624-1647. On his death without an heir, the domain was placed under Matsumoto Domain for a year, until the transfer of Aoyama Munetoshi, who was raised from hatamoto status. He subsequently served as Osaka jōdai from 1662, and Komoro was given to Sakai Tadayoshi, formerly of Isesaki Domain. Sakai was demoted to Tanaka Domain in Suruga Province in 1679. The next ruler of Komoro was Nishio Tadanari, formerly of Tanaka Domain. He made great efforts to undo the damage caused by the misgovernment of Sakai Tadayoshi, but was transferred to Yokosuka Domain in 1682. Komoro was then given to a junior branch of the Matsudaira clan from 1679 to 1702. In 1702, Makino Yasushige was transferred to Komoro from Yoita Domain in Echigo Province. This at last brought stability to the administration of the domain, as the Makino clan continued to rule until the Meiji restoration. During the Boshin War, the 10th daimyō, Makino Yasumasu quickly supported the imperial side, and participated in the Battle of Hokuetsu and was assigned to guard Usui Pass. However, in September 1869 he was forced to suppress an attempted coup d’etat within his own domain. In July 1871, with the abolition of the han system, Komoro Domain briefly became Komoro Prefecture, and was merged into the newly created Nagano Prefecture.
As with most domains in the han system, Komoro Domain consisted of several discontinuous territories calculated to provide the assigned kokudaka, based on periodic cadastral surveys and projected agricultural yields.
Makino Yasushige was the 3rd Makino daimyō of Yoita Domain in Echigo Province and the 1st Makino daimyō of Komoro Domain under the Edo period Tokugawa shogunate. Ieshige was the fifth son of Honjō Munesuke of Ashikaga Domain and his mother was a princess of the Nijō clan. In 1688 he was adopted by Makino Yasumichi, and became daimyō of Yoita on the latter's retirement the following year. In 1702, he received an increase in kokudaka of 5000 koku, and was transferred to Komoro. HIs wife was a daughter of Ogasawara Tadakata of Kokura Domain. He died in 1723.
Makino Yasuchika
Makino Yasuchika was the 2nd Makino daimyō of Komoro. Yasuchika was the eldest son of Makino Yasushige. He was received in formal audience by ShogunTokugawa Yoshimune in 1720, and became daimyō on his father's death in 1722. In 1725 he visited his domain for the first time. In 1731 he was appointed bugyō to oversee ceremonies at Nikkō Tōshōgū. In 1742, the domain suffered from severe damage due to storms and he applied for a loan of 2000 ryō from the shogunate. In 1751, he turned to the parent house of the Makino clan at Nagaoka Domain for financial assistance. His wife was a daughter of Rokugō Masaharu of Honjō Domain. He died in 1758.
Makino Yasumitsu
Makino Yasumitsu was the 3rd Makino daimyō of Komoro. Yasumitsu was the eldest son of Makino Yasuchika and was born in Komoro. He became daimyō on his father's death in 1758. In 1762 he was appointed a sōshaban, holding that position until his retirement in 1784. He retired to Edo, where he devoted his days to poetry, painting and drinking until his death in 1801. His wife was a daughter of Makino Sadamichi of Nobeoka Domain.
Makino Yasuyori
Makino Yasuyori was the 4th Makino daimyō of Komoro. Yasuyori was the eldest son of Makino Yasumitsu and became daimyō on his father's retirement in 1784. In 1786 he was appointed Osaka kaban. He died at the clan's Edo residence at Koishikawa in 1794 at the age of 45. His wife was a daughter of Matsudaira Chikamitsu of Kitsuki Domain.
Makino Yasutomo
Makino Yasutomo was the 5th Makino daimyō of Komoro. Yasutomo was the eldest son of Makino Yasuyori and became daimyō on his father's death in 1794. In 1798 he was appointed a Sōshaban. However, he was sickly and could only walk with a cane. He died of beriberi in Edo in 1800 at the age of 27. His wife was a daughter of Matsudaira Nobuhiro of Akashi Domain.
Makino Yasunaga
Makino Yasunaga was the 6th Makino daimyō of Komoro. Yasunaga was the eldest son of Makino Yasutomo and became daimyō on his father's death in 1800. In 1802 he established a han school. He received the courtesy title of Naizen-no-kami in 1814. He retired citing illness in 1819, but lived to 1868. He never took a formal wife.
Makino Yasuakira
Makino Yasuakira was the 7th Makino daimyō of Komoro. Yasuakira was the second son of Makino Yasutomo and became daimyō on his brother's retirement in 1819. He received the courtesy title of Naizen-no-kami in 1822. He died at the clan's Edo residence at Koishikawa in 1827 at the age of 28. His wife was a daughter of Torii Tadateru of Mibu Domain; however, he had no male heir.
Makino Yasunobu
Makino Yasunobu was the 8th Makino daimyō of Komoro. His name is also sometimes transliterated as "Yasunori". Yasunobu was the sixth son of Makino Tadakiyo of Nobeoka Domain and was adopted as heir to Makino Yasuakira. He became daimyō in 1827; however, he died at the clan's Edo residence at Hamamachi in 1832 at the age of 24. His wife was a daughter of Ishikawa Fusasuke of Kameyama Domain; however, he had no male heir.
Makino Yasutoshi
Makino Yasutoshi was the 9th Makino daimyō of Komoro. Yasutoshi was born in Hibiya, Edo as the sixth son of Makino Sadamoto of Kasama Domain and was adopted as posthumous heir to Makino Yasunobu in 1832. At the time, the domain was suffering greatly form the Great Tenpō famine, and also from a smallpox epidemic. Yasunobu brought doctors with smallpox vaccine from Edo, and led the effort vaccinate the population by having his own children vaccinated first to set an example. From 1855, he attempted to institute numerous rural reforms based on the teachings of Ninomiya Sontoku and to create stockpiled against future bad harvests. He also encouraged the development of a washi paper industry. In 1858, he was appointed a wakadoshiyori, and was a strong supporter of the Tairō Ii Naosuke. He died in 1863 at the age of 46. His wife was a daughter of Matsudaira Nobuhide of Kameyama Domain. After her death, he remarried to a daughter of Kutsuki Tsunaeda of Fukuchiyama Domain.
Makino Yasumasa
Makino Yasumasa was the 10th Makino daimyō of Komoro. Yasutoshi was the second son of Makino Yasutoshi and was received in formal audience by Shogun Tokugawa Iemochi in 1859. He became daimyō on his father's death in 1863 and from 1864 his courtesy title was promoted to Tōtōmi-no-kami. However, among his retainers, there was a strong faction which supported his younger brother Nobunosuke, and was forced to suppress an attempted coup. He also faced possible overthrow when he sided with the imperial faction in the Boshin War and ordered his forces against the pro-Tokugawa army at the Battle of Hokuetsu, as this placed the domain in direct conflict with its parent house at Nagaoka Domain. In September 1869, he also had to suppress a revolt by followers of the failed Mito rebellion within his domain. Later in 1869, he was appointed imperial governor of Komoro by the new Meiji government. On the abolition of the han system in July 1871, he changed his name to Yasutomi. He retired from public life in 1883 and died in 1918.