What is the best tool to document projects in an organized manner?

There are many solutios and options.
But I guess you can choose2 main directions.1.) If you need very detailed and organized project planning, scheduling and assesment docukentations then you can have specialised softwers like Microsoft Project.
This application is very sophisticated and cover all part of project management.
Additionally you can manage multiple projects (sub-projects as well with it)2.) If you need "only" some sort of overview about your projet(s) then you can get some sofwares that can help you to store your inputs, maybe calculate some outputs and make the results visible.
I would choose MS Excel, Visio and Access.

Online solutions available has easiest the life very much, thank to computer

The best tool to document projects in an organized manner is using the following software: for scheduling and simple presentration for project on time monitoring, i use MS Project; for integrateion of detailed estimates linked in different factors that are needed to complete the project cost estimates and budgetary, i use EXCEL; for companies that has a SAP System, it has a fast output from request of materials or services to the delivery of the needed construction materials or services.
Hopefully, i could also have a knowledge in PRIMAVERA, as it could help me be a better planning/cost engineer.

for individuals: MS-Project,MS-Excel,MS-Word,MS-Visio, smartsheet.com for Companies: Microsoft EPM, or use cloud option (e.g.
zoho projects)

Simple & fast tools you can use MS project as it has great reporting tools that can generate what ever you need based on the inputs/details you provide.

word, excel, MS project, Visio, DMS and it is always helpful to have a simple system to log the resources time sheets for later reporting purposes, all of these combined together should make a great tools for a project reporting, a BI tool (Qlickview for example) is a nice to have tool for project statistics and reporting purposes, but it could be considered as cherry on the top of the cake.
but at the end the most important is to know what are the essential project documents that you need to prepare.

I personally prefer something that can be collaborated online.
So either using Google Documents or Dropbox to sync Excel files and keep track of progress (you just have to make sure there's accountability and that you have backups of previous versions!).

for my speciliast I need to excel & word