I actually felt for Malcolm...
He wasn't evil, just misguided and lonely.
He had poor social skills but it didn't help matters when he'd get shot down when he TRIED to socialise.
And its even more damaging to a kids self-esteem when ADULTS butt in to take cheap shots, like that lunch lady who always had to make some snide remark at him or rub his nose in something that went wrong for him while the other kids who were the 'heroes' stood on the sidelines and laughed at him. I wished I could have been there to say; "Why don't you mind your own middle-aged business lady!"
Sure Malcolm came across as surly and arrogant, but so do a lot of people who get hurt a lot by the thoughtlessness of others.
The series could have come to an end with Malcolm finally reconcilling with the others. This show was patterned after Japanese anime and a lot of their shows ended with enemies becoming friends.