Having now scrapped the timeline, reorganized my notes and made major changes to projections in it, with the intent of rewriting the thing in the near future, I think I can now spoil the now not-valid ending to my Timeline. So yeah.
1861-1865: Abraham Lincoln / Nathaniel P. Banks (Republican)[1]
1860: Samuel Houston / Henry J. Garner (Constitutional Union), T. Howell Cobb / Jesse D. Bright (Southern Democratic), Stephen A. Douglas / Sanford E. Church (Northern Democratic)
1865-1866: Abraham Lincoln / Daniel S. Dickinson (Unified Unionist)[2]
1864: Franklin Pierce / Buckner S. Morris (Liberal Democratic)[3]
1866-1866: Abraham Lincoln / vacant (Unified Unionist)
1866-1867: Stephen A. Douglas / vacant (Unified Unionist)[4]
1867-1873: Stephen A. Douglas / Hannibal Hamlin (Unified Unionist)
1866: Daniel W. Voorhees / various (Liberal Democratic)
1868: Salmon P. Chase / Fitz-John Porter (Liberal Democratic)
1873-1881: Ambrose E. Burnside / Benjamin G. Brown (Republican)[5]
1872: John A. McMahon / Andrew Johnson (Liberal Democratic) David Davis / various (Workers’)[6]
1876: Samuel J. Tilden / Henry B. Payne (New Democratic)[7]
1881-1883: Stephen A. Douglas / William Dorsheimer (Democratic)[8]
1880: James B. McPherson / George W. Hendee (Republican)
1883-1885: William Dorsheimer / vacant (Democratic)
[1] - For those of you who haven't read the aborted project... Robert E. Lee was killed at Harper's Ferry and became a major martyr for the South, meaning the Fireeater's were more empowered in the 1860 election, the Southern Democrats won the "official" nomination and Stephen A. Douglas led the split in the Party rather then the other way around. The Republicans selected Banks because the split meant Ex-Democrats had more clout at their convention rather then ex-Whigs, thus Salmon Chase rather then William Seward got his man picked for the number two slot.
Lincoln would lead the war though the following four years, the Confederacy fighting on in spite of its own Government's inability to move past ideology to win the war. The major campaigns of 1864 break the main Confederate field armies in the West but the war drags on for another year before concluding. Politically Lincoln asks Senator Douglas to visit California due to a small scale revolt there in late 1861, and thus he avoids the diseases in St. Louis that killed him, and he becomes The leader of the War Democrats who ally with the GOP.
[2] - In 1864 Lincoln and Douglas unite the War Democrats, Moderate Democrats and Republicans into a new party to win the war. The Unified Unionist Party doubles down on the importance of keeping the country together by uniting the majority of the Political Spectrum. A key Douglas Ally from New York serving as VP replacing the problematic Banks. It is this new party and administration that sees the end of the war in the fall of 1865 after major battlefield victories at the start of the year and a short, brutal attempt to move the war to a "Boer" phase by the Fireeaters.
[3] - The Rump of the Democratic Party, styling itself as "Liberal Democrats" in the face of "Authoritarian Democrats" who joined Lincoln, fails to win any states more then Kentucky, even with a former president on the ticket. The Doughfaces though will control the party for several more years to come.
[4] - Dickenson's health collapsed before Lincoln was slain by an assassin in 1866 (Lets be honest, there's no chance he was going to live after Emancipation and the 13th Amendment, and all his "dangerous" talk about USCT voting rights.) And thus the Presidentcy descended upon the Unified Unionist President of the Senate, Stephen A. Douglas. Winning the emergency election that followed in the face of a confused opposition and his own term Douglas would lead the nation though his own round of Reconstruction. Lincoln had been light, seeking a minimal level of support from the Former Confederates in exchange for a return of rights and peace. When faced with violence against Freedmen by Ex-Confederates Anyway, Lincoln had used troops and force to protect them, but attempted to be surgical about it. Douglas kept the troops in place but decided to focus more on economic and education rights for the Freedmen, the founding of the Department of Education and Welfare being a tool which he would use to ensure Blacks had equal education rights in the South even in the face of White Governments wishing to cut funding or to segregate state education.
[5] - After 6 years of Douglas, the Unified Unionists nominated a Republican from an old Whig family. Ambrose Burnside by nature of shifted command authorities had a good career as a Corps Commander and eventually, after the appointment of General Grant (Who declined to run for the Presidency) to General-in-Chief, became Commander of the Army of the Potomac. After the war served as Senator from Rhode Island before getting the top job. Fought the Klan, worked to secure decent treaties with native tribes (Often failing) and overseeing the growth of industry and railroads in the US.
[6] - Disunited Labor Parties, Unions and other Proto-Socialist Groups attempted to run a ticket in the 1872 election but failed to properly come together, behind their man, former Postmaster General and Congressmen David Davis. None the less various Worker's tickets were decisive in throwing several States to the Liberal Democrats.
[7] - As the Burnside administration moved forward, issues of Trade, Tariffs, Taxes and Currency began to break apart the old Wartime alliances. With the Liberal Democrats remaining set in opposing Reconstruction and losing plenty of ground for it, former President Douglas and his allies oversaw the creation of a New Democratic Party which helped obliterate the "Liberal" party and lead to a new party of Jackson and The Union. Governor Tilden was their first nominee and secured the parties footing, and ensuring that the Democrats would not be tarred by charges of Treason.
[8] - And four years after that, Douglas would be the parties nominee after a divided convention, and retake the White House as the First Democrat to hold the office for 20 years (And by some members counts 40). In the years before his Death, Douglas would see bills creating a Department of Industry to oversee the nations economic growth and railroads, as well as a law securing a 10 hour work day for all workers. Douglas would also see the winding down of the last Federal Troops in the South, as the Southern Democrats were forced to accept a more moderate form of leadership.