Actually on page 117 of the Tome of Magic, you do gain more mysteries when advancing in certain prestige classes.
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When advancing in a prestige class that states "+1 level of existing spellcasting class" or "+1 level of existing casting class," a mystery user adds those levels to his mystery-casting class for purposes of gaining new mysteries or fundamentals. On the other hand, a mystery user does not benefit from prestige classes that only add levels to specific types of spellcasters. A prestige class that grants "+1 level of existing arcane spellcasting class" or "+1 level of existing divine spellcasting class" does not increase the character's mysteries.
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You do not however gain access to bonus feats for learning new paths or any other shadowcaster class features.
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PRESTIGE CLASS CASTING ADVANCEMENTS
When a shadowcaster gains new casting class levels from advancement within a prestige class, this includes the knowledge of new fundamentals, and the transformation of lower-level path mysteries into spell-like or supernatural abilities. It does not include gaining bonus feats for learning new paths or any other shadowcaster class features.
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