No. Although routines and activities may differ between a child's lessons at school and with a tutor or parent using ABeCeDarian, the general content and the ultimate goals are exactly the same. Students read English words in both lessons and they are evaluated in terms of how many words they can read accurately and fluently. ABeCeDarian explains the logic of our spelling system explicitly, comprehensively, and precisely without using extraneous vocabulary or having students memorize rules to explain spelling patterns. Because the instruction is so precise and efficient in ABeCeDarian, students avoid frustration, learn quickly, and see their own progress, so they are motivated by their lessons and enjoy reading more, and are better able to make sense of the activities they have to perform in their reading lessons at school.
It is important to note that children generally exercise highly developed skills at figuring out the different rules and routines that apply in different environments. In one teacher's class, for instance, there might be a strict rule about classroom noise, while in another's, there is not. There are certain rules for playing a playground game when just the fourth graders are playing it by themselves, and a slightly different set of rules when 1st through 4th graders are playing it together. Most children readily learn to discern the different rules that apply in different environments and can keep them compartmentalized without confusion.
The greatest discord between school instruction and ABeCeDarian will occur in the unfortunate event that the school instruction actively encourages students to guess when they come across an unfamiliar word. What is potentially confusing in this situation, however, isn't the discord between school and ABeCeDarian lessons, but confusion sown by the inefficient strategy of guessing. Although there are many poor readers who are resigned to guessing because they do not have the letter/sound knowledge and blending skills to sound out unfamiliar words very well, there are virtually none who are happy having to guess. Guessing is not really a tool but a mark of limitation and a sign of failure. What will happen to the student in his ABeCeDarian lessons is that he will acquire the knowledge and skill necessary to read unfamiliar words well--he won't be obliged to try to read words without really having much to go on. In short, he will become less confused!