You have a typo in intersect where you have switched 1 with as lower case L. If you fix that your intersect seems fine by me if you are comparing symbols. Eg.
(define intersect
  (lambda (set1 set2)
    (cond
      ((null? set1)(quote ()))
      ((member? (car set1) set2)
       (cons (car set1)
             (intersect (cdr set1) set2)))
      (else (intersect (cdr set1) set2)))))
(intersect '(a b c d) '(c d e f)) ; ==> (c d) 
To make it compare other things than symbols, you need to change your member? so that it uses equal? instead of eq?. It will be like this:
(define member?
  (lambda (a lat)
    (cond
      ((null? lat) #f)
      (else (or (equal? (car lat) a) ; changed eq? to equal? 
                (member? a (cdr lat)))))))
(intersect '((1 2)(3 4)(5 6)) '((9 10) (7 8) (5 6))) ; ==> ((5 6))
Even after this. The symbol version above still works.
In any LISP (Common Lisp and Scheme at least) you have member. It uses equal and evaluate to false (whatever is false in the implementation) when it's not found and if it's found it evaluates to the rest of the argument list starting from where the element was found (which is considered true):
(member 'a '(x y a c)) ; ==> (a c)
Using standard member instead of your own predicate:
(define intersect
  (lambda (set1 set2)
    (cond
      ((null? set1)(quote ()))
      ((member (car set1) set2)
       (cons (car set1)
             (intersect (cdr set1) set2)))
      (else (intersect (cdr set1) set2)))))
(intersect '((1 2)(3 4)(5 6)) '((9 10) (7 8) (5 6))) ; ==> ((5 6))
(intersect '(a b c d) '(c d e f)) ; ==> (c d) 
EDIT 1
It seems you are not searching for intersection but a special alist merge:
#!r6rs
(import (rnrs base)
        (rnrs lists))
;; if you dont have r6rs remove the above and
;; uncomment this rnrs/lists-6 memp
#;(define (memp predicate? lst)
  (cond ((null? lst) #f)
        ((predicate? lst) lst)
        (else (memp predicate? (cdr lst)))))
(define (alist-merge merge-proc alist-1 alist-2)
  (if (null? alist-1) 
      '()
      (let* ((name (caar alist-1))
             (found (memp (lambda (x) (equal? (car x) name)) alist-2)))
        (if found
            (cons (merge-proc (car alist-1) (car found))
                  (alist-merge merge-proc
                               (cdr alist-1)
                               alist-2))
            (alist-merge merge-proc
                         (cdr alist-1)
                         alist-2)))))
(define (alist-merge-add alist-1 alist-2)
  (alist-merge (lambda (x y)
                 (list (car x)
                       (+ (cadr x) (cadr y))))
               alist-1
               alist-2))
(alist-merge-add '((1 2)(2 7)) '((1 3)(4 5))) ; ==> ((1 5))