Portuguese traders and missionaries came to Flores in the 16th century, mainly to Larantuka and Sikka. Their influence is still discernible in Sikka's language, culture and religion. The first Portuguese visit took place in 1511, through the expedition of António de Abreu and his vice-captain Francisco Serrão, en route Sunda islands.
The Dominican order was extremely important in this island, as well as in the neighbouring islands of Timor and Solor. When in 1613 the Dutch attacked the Fortress of Solor, the population of this fort, led by the Dominicans, moved to the harbor town of Larantuka, on the eastern coast of Flores. This population was mixed, of Portuguese and local islanders descent and Larantuqueiros, Topasses or, as Dutch knew them, the 'Black Portuguese' (Swarte Portugueezen).
The Larantuqueiros or Topasses became the dominant sandalwood trading people of the region for the next 200 years. This group used Portuguese as the language for worship, Malay as the language of trade and a mixed dialect as mother tongue. This was observed by William Dampier, an English privateer visiting the Island in 1699.
These [the Topasses] have no forts, but depend on their Alliance with the Natives: And indeed they are already so mixt, that it is hard to distinguish whether they are Portuguese or Indians. Their language is Portuguese; and the religion they have, is Romish. They seem in words to acknowledge the King of Portugal for their Sovereign; yet they will not accept any Officers sent by him. They speak indifferently the Malayan and their own native Languages, as well as Portuguese.
In 1846, Dutch and Portuguese initiated negotiations towards delimiting the territories but these negotiations led nowhere. In 1851 Lima Lopes, the new governor of Timor, Solor and Flores, agreed to sell eastern Flores and the nearby islands to the Dutch in return for a payment of 200,000 Florins in order to support his impoverished administration. Lima Lopes did so without the consent of Lisbon and was dismissed in disgrace, but his agreement was not rescinded and in 1854 Portugal ceded all its historical claims on Flores. After this, Flores became part of the territory of Dutch East Indies.
During World War II a Japanese invasion force landed at Reo on 14 May 1942 and occupied Flores.
After the war, Flores became part of independent Indonesia.
On 12 December 1992, an earthquake measuring 7.8 on the richter scale occurred, killing 2,500 people in and around Maumere, including islands off the north coast.
The earliest stories of a dragon existing in the region circulated widely and attracted considerable attention. But no one visited the island to check the story until official interest was sparked in the early 1910s by stories from Dutch sailors based in Flores in East Nusa Tenggara about a mysterious creature. The creature was allegedly a dragon which inhabited a small island in the Lesser Sunda Islands (the main island of which is Flores).
The Dutch sailors reported that the creature measured up to seven metres (twenty-three feet) in length with a large body and mouth which constantly spat fire. Hearing the reports, Lieutenant Steyn van Hensbroek, an official of the Dutch Colonial Administration in Flores, planned a trip to Komodo Island. He armed himself, and accompanied by a team of soldiers he landed on the island. After a few days, Hensbroek managed to kill one of the lizards.
Van Hensbroek took the dragon to headquarters where measurements were taken. It was approximately 2.1 metres (6.9 feet) long, with a shape very similar to that of a lizard. More samples were then photographed by Peter A. Ouwens, the Director of the Zoological Museum and Botanical Gardens in Bogor, Java. The records that Ouwens made are the first reliable documentation of details about what is now called the Komodo dragon (or Komodo monitor).
Ouwens was keen to obtain additional samples. He recruited hunters who killed two dragons measuring 3.1 metres and 3.35 metres as well as capturing two pups, each measuring less than one metre. Ouwens carried out studies on the samples and concluded that the Komodo dragon was not a flame-thrower but was a type of monitor lizard. Research results were published in 1912. Ouwens named the giant lizard Varanus Komodoensis. Realizing the significance of the dragons on Komodo Island as an endangered species, the Dutch government issued a regulation on the protection of the lizards on Komodo Island in 1915.
The Komodo dragon became something of a living legend. In the decades since the Komodo was discovered, various scientific expeditions from a range of countries have carried out field research on the dragons on Komodo Island.