First, get the RS Paris book and read it. It will give you a wealth of information. I have been to Paris several times and there are no major museums or any that I know of in Paris to book in advance. Rome and Florence have some museums that you need to reserve but not Paris. My suggestion if you intend to go to several museums would be to buy the Museum Pass when you arrive in Paris and date it the day you are going to a museum that takes the pass. Do not date it, if you are not going that day to a musuem. RS has more detailed instructions on this.
I like to going to the The Musée de l'Armée (Army Museum) is a national military museum of France located at Les Invalides in the 7th arrondissement of Paris. It is served by Paris Métro stations Invalides, Varenne, and La Tour-Maubourg. This is where Napoleon's tomb is and a must see. I find this to be a great place to buy your museum pass. There are other places to buy the pass, but if you are going to a museum this is a good place to start. Rodin museum is right across the street. Don't buy it at the Lourve or the D'Orsay ( which are both must see museums) as the lines are too long.
Paris is always crowded, so having a game plan and knowing where you are going and look at a map to map out the places near each other is important. Do make reservartions for places to eat as soon as possible because most restaurants are small. You can ask your hotel to make reservations for you in advance. Do make reservations for Sunday night dinners because many restaurants are closed on a Sunday night. You can go on restaurant websites and make reservations sometimes. I learned that the hard way and had to scramble to find a nice place, which I did and it is a keeper.
You don't choose a specific time slot and print out tickets for the museums, again that does happen for a few museums in Rome and Florence but not Paris. The museum pass is very important to have, it allows you to skip the main line but no timed tickets.
There is tons of places to see in Paris, Notre Dame, all the museums, Monet's Gardens (outside of Paris). Read the guide book, pm me if you have more specific questions. Don't wing things as you will wait in long lines. Did you make your Eiffel Tower reservations, that is important. I could go on and on about all the museums and sights and walking about Paris and the restuaurants and shops and the Shopping Passages and the Seine River boat ride and how lovely Paris is. Palace of Versailles,
Must go to Palace of Versailles which is covered by the museum pass.
I have not done this, but if you are in Paris two weeks, check out places to go outside of Paris, the RS Paris guide book as a section of where to go and how to get there including Monet's Gardens and some churches and Chateaus (castles) right outside of Paris. that look wonderful http://www.musee-chateau-fontainebleau.fr Musee Fountainebleau is a castle that is supposed to amazing. There are others right outside Paris. Have a wonderful and safe trip. Take some time and plan out your days, things happen during the day, but at least you will know where you want to go to first thing in the morning and you will know what is nearby and you will have a more structured day with room for things to see as you are passing by. Have a fun time.