Paolo Emilio Botta, who was sent to Mosul as the French Consul in 1842, explored at Kuyunjik and Nebi Yunus and then began investigating ancient stone foundations at Nebi Yunus. Muhammed/Mehmed Pasha and local religious leaders, who were worried that the tomb of prophet Yunus (Jonah) and a local mosque would be destroyed by the excavations, opposed these investigations and the work stopped as a result. After Nebi Yunus, Botta started to work at Kuyunjik in December 1842. While his workers were busy at Kuyunjik, someone from the village of Khorsabad talked about stones with inscriptions and reliefs on them on top of a hill. After three months of exhaustive work at Kuyunjik, on March 20th, 1843 Botta sent a group of workers to Khorsabad for excavation. However, problems arose about Botta's work in Mosul. The Pasha of the province in particular created obstructions. We have done research in the Ottoman Archives of the Prime Ministry of Turkey on Botta's excavation permits and documents, the obstructions created by the Pasha of Mosul, the details of the story of Botta's experiences at Khorsabad and the relevant correspondence. In these archives we have found documents about the problems Botta experienced at Khorsabad, the conditions for excavation permits and the construction of an excavation house, the plan of the excavation house mentioned by Botta, which was drafted like a fortress next to the village houses and sent to Istanbul, as well as petitions of the villagers opposing Botta's work and his excavation house. Here, we attempt to re-read Botta's excavation seasons, permits and the problems he encountered through the documents in the Ottoman Archives in order to understand how this period is to be understood. Through these documents and correspondence, we were able to study the problems that arose between the Ottoman State and France as a result of Botta's excavations at Khorsabad.