Primary Sources
Documents
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Internet Women's History Sourcebook : Extensive collection of sources focusing on women, including a large section on the Middle Ages.
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The Ecole Initiative : Massive site filled with documents, images, and other primary and secondary sources.
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Eurodocs : Collection of links to primary sources from all over Europe.
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The Fathers of the Church : The Collected writings of the Early Church Fathers and others.
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The Saint Pachomius Library : Large collection of sources focused on religious topics.
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ORB Text Library : Contains a small but growing collection of Medieval primary sources.
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The Labyrinth Library : Good collection of primary sources from Western Europe, mostly texts.
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In Parentheses : Site dedicated to translated primary sources of literature and history.
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L.I.B.R.O. : The Library of Iberian Resources Online. Excellent site containing some nice documents and entire books online. Most of the titles are recent.
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De Re Militari : Primary sources focusing on medieval military history (click here for secondary sources.)
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British History Online : Extensive Collection of digitized British archival sources.
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Images
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DScriptorium : Excellent collection of digital images of Medieval manuscripts.
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Nixnet Medieval : Good collection of links leading to art and architecture images.
If you can not find what you are looking for in these links, I suggest a wider web search on Google or Answers.com.