Inchiquin defected to Parliament, giving them control of the ports of Cork, Kinsale and Youghal. In late 1644, the Confederates took Bandon but Inchiquin retained control of Cork; Preston captured Duncannon in January 1645, then besieged Youghal but lack of supplies forced him to abandon the siege in March 1645. Refugees The opening years of the war saw widespread displacement of civilians – both sides practising what would now be called ethnic cleansing. In the initial phase of the rebellion in 1641, the vulnerable Protestant settler population fled to walled towns such as Dublin, Cork and Derry for protection. Others fled to England. When Ulster was occupied by Scottish Covenanter troops in 1642, they retaliated for the attacks on settlers by attacks on the Irish Catholic civilian population. As a result, it has been estimated that up to 30,000 people fled Ulster in 1642, to live in Confederate held territory. Many of them became camp followers of Owen Roe O'Neill's Ulster Army, living in clan-based groupings called "creaghts" and driving their herds of cattle around with the army. Outside of Ulster, the treatment of civilians was less harsh, although the "no-mans-land" in between Confederate and British held territory in Leinster and Munster was repeatedly raided and burned, with the result that it too became de-populated. Victory and defeat for the Confederates The stalemate, however, broke in 1646. During the summer after the end of the First English Civil War, the Confederate military tried to make as many gains in Ireland as they could before the expected invasion by the forces of the English Parliament. In that effort they were quite successful. On 5 June 1646, Owen O’Neill defeated a Parliamentary and Scottish army commanded by Robert Munro at Benburb. During July, Thomas Preston leading the Leinster Army of the Confederates captured the Parliamentary stronghold at Roscommon while Donough McCarthy Viscount Muskerry captured the castle of Bunratty. On 30 July, however, it was proclaimed in Dublin by the Royalists that the Confederate Supreme Council had signed a peace treaty on 28 March 1646 with King Charles as represented by Ormonde. The treaty was signed unbeknownst to the Confederate military commanders and without the participation of the leader of the Catholic clergy, Rinuccini, who had arrived in Ireland with money and arms as the Papal Nuncio nine months earlier. Many provisions of the treaty were unacceptable to Rinuccini and the Confederate military