Qur'aan & Fiqh

Holy Quran at Islam.com
Quraan.com - search words in the Quraan
Quran Explorer
Quran Flash
Qur'anic Studies
Islamway (very well organised under Qira'aat and with reciter's name etc)
Islamway in English (still does not mention which Qira'aat)
The Text Of The Quran
iKnowledge - Quran, Tafsir, Hadith, Seerah
Understand Quran

Remedies from the Holy Qur'an
Take it with a grain of salt, or search for the proof in tafseer, because this book has no references to authentic sources.

Tajweed
Tajweed Al Qur'an
أحكام التلاوة
Tajweed.com (links to sites about tajweed and for studying the Qur'aan)
The Importance of Tajweed
Tajweed Podcast
Halaqaat - The Importance of Tajweed
Mushaf At-Tajweed

Tafseer
Tafsir Ibn Kathir (in English - weak accounts omitted)
تفسير ابن كثير
تفسير الطبري
تفسير الجلالين
تفسير القرطبي
Explanation of the major Tafaaseer (in Arabic), found on the blog Fajr, which also has other interesting posts in the subject of Qur'anic sciences.
AhlalTafsir, where the sound files of the above duruus are to be found, and much more, mashaa Allah.
Tafseer.org, with Zubdat at-Tafseer (only the last tenth of the Qur'an and al-Faatihah).