Presidency and PLO leadership
Despite Abbas's call for a peaceful solution, attacks by militant groups continued after his election, in a direct challenge to his authority. The Palestinian Islamic Jihad Movement in Palestine launched a raid in Gaza on 12 January 2005, that killed one and wounded three Israeli military personnel. On 13 January, Palestinians from the Al-Aqsa Martyrs' Brigades, Hamas, and the Popular Resistance Committees launched a suicide attack on the Karni crossing, killing six Israelis. As a result, Israel shut down the damaged terminal and broke off relations with Abbas and the Palestinian Authority, stating that Abbas must now show a gesture of peace by attempting to stop such attacks. Abbas was formally sworn in as the President of the Palestinian National Authority in a ceremony held on 15 January, in the West Bank town of Ramallah.
In February 2005, Abbas met with Israeli prime minister Ariel Sharon at the Sharm el-Sheikh Summit to end the Second Intifada, and they both reaffirmed their commitment to the Roadmap for peace process. Sharon also agreed to release 900 Palestinian prisoners of the 7,500 being held at the time, and to withdraw from West Bank towns.
On 9 August 2005, Abbas announced that legislative elections, originally scheduled for 17 July 2005, would take place in January 2006. On 20 August, he set the elections for 25 January. On 15 January 2006, Abbas declared that, despite unrest in Gaza, he would not change the election date, unless Israel were to prevent Palestinians in East Jerusalem from voting. The elections took place on 25 January 2006, and resulted in a decisive Hamas victory.
In January 2006, in the context of Fatah's election loss and Hamas' presumed future one party government, Abbas said that he would not run for office again at the end of his term. However, following international sanctions against a Hamas one party government, political and military conflicts between Hamas and Fatah, and the division of the country, which made new elections impossible, Abbas stayed president after the expiration of his four-year term on 15 January 2009. He extended his term for another year, using another interpretation of the Basic Law and the Election Law, so he could align the next presidential and parliamentary elections. Pointing to the Palestinian constitution, Hamas disputed the validity of this move, and considered Abbas's term to have ended, in which case Aziz Duwaik, Speaker of the Palestinian Legislative Council, would have become acting president.
In December 2009, the leadership of the Palestinian Central Council announced an indefinite extension of Abbas's term as president. Since then, Abbas has remained president of the Fatah-controlled areas of the Palestinian territories. In April 2014, Hamas withdrew its objection, in order to form a Unity Government with Fatah.
Abbas has supported the blockade of the Gaza Strip as a means of weakening Hamas. In 2010, Abbas declared that he opposed lifting the Israeli naval blockade of the Gaza Strip because this would bolster Hamas. Egypt also supported this position. In 2014 and subsequent years, Abbas supported Egypt's crackdown on smuggling tunnels and welcomed the flooding of the tunnels by Egypt in coordination with the PA. In 2016, Abbas objected to the entrance of Qatari fuel to the Gaza electricity plant via Israel, because his PA would be unable to collect taxes on the fuel.
In December 2014, Abbas signed an application for Palestine to join the International Criminal Court, just one day after the UN Security Council voted against a resolution demanding the end of Israeli occupation of Palestinian territories and statehood for Palestine by 2017. The threat of joining the ICC and suing Israel for war crimes had been considered by Palestinian officials for years prior, but the move was seen as a diplomatic "last resort." The decision came as Abbas's administration dealt with allegations of corruption and mismanagement, potential political challenges from rival parties and other Fatah members, and low approval ratings.
In August 2015, Abbas announced his resignation as chairman of the executive committee of the PLO, and subsequently called for an emergency meeting of the PNC to hold an election. The announcement drew criticisms and speculation as to his motives. His proposed special session of the PNC was postponed indefinitely, and he remains acting chairman of the PLC as of October 2023.
In 2021, local elections in Palestine were held amidst a rift between Abbas and Hamas. This was after he had indefinitely postponed the presidential election and parliamentary elections.
During the Gaza war, Abbas rejected "practices of killing civilians or abusing them on both sides because they contravene morals, religion and international law." He called for the "release of civilians, prisoners and detainees" and expressed concern about the consequences of Israel's total blockade of the Gaza Strip. Abbas declared three days of mourning following the Al-Ahli Arab Hospital explosion and canceled a planned meeting with U.S. president Joe Biden. In February 2024, he called the Al-Rashid humanitarian aid incident an "ugly massacre" that was perpetrated by the "Israeli occupation army." In April 2025, in his strongest remarks since the war began, Abbas condemned Hamas as "sons of dogs," blaming them for giving Israel justification to continue its assault on Gaza and demanding they release the Israeli hostages, disarm, and cede control of the territory.