Summae and Tractatus have a different source quality calculation than in the core game- the base source quality of a text is equal to the authors communication+3 for good teacher, +1/2 (teaching+vulgar poetry) with a bonus for craft quality of scribe, illumination, and bookbinding for magical tomes, or simply scribe and illumination for non magical tomes (bookbinding quality will aid the durability of texts in either case).
affinity, puissant, and cautious abilities for abilities with (categories) will carry across all categories. Affinity for living language or affinity with dead language are mutually exclusive with linguist, but not with each other.
aura variation rules will be used
income variation rules will be used, with the following modifier: 1/2 the prevailing loyalty will be added to the die roll as more loyal people tend to put more effort into the job
prevailing loyalty is modified as follows: rewards can only gain a total of +5 loyalty points, and every 2 years with no rewards will drop the bonus by 1 point. Loyalty points from altruism are lost at 1 point every 5 years, loyalty from reputation lasts only as long as the reputation itself does, similarly negative points for wounds, attitude or punishment are lost at the same rate points are gained for familiarity, but not while familiarity points are being gained.
spell mastery: custom target- this form of spell mastery allows the magus to define one extra target per level which does not take warping from having this spell cast on them.
For the beginning mages Magister in artibus may not be taken- this is primarily an issue regarding time usage as an apprentice and is specific to this situation.
Magical senses may be granted with Mu(In)Co spells as well as Mu(In)Me
craft magic and city and guild- the "ease factor" for craft work is 6 points higher than the workshop total for calculating the necessary finesse roll to replicate craft work.
Warping is tallied separately depending on realm. Any source of warping may trigger twilight (or other tradition based reactions), and warping from twilight is always magical.
Rolls to avoid twilight are based on the sum of the warping scores, rolls to comprehend twilight depend only on the magical warping.
familiar's and learning: SQ for bound familiars learning mundane (including arcane) abilities is not reduced by their might. Experience towards transformation is.
Lab bonuses in an art (not GQ or other specializations) will add to the study of that art when studying vis in that lab.
I consider MOH and LOH to be largely fluff, do not rely on sample spells or virtues and flaws from these books. An exception is exciting experimentation, more may be posted later upon individual review