A population of 98 adults previously treated for moderate to advanced adult periodontitis and currently maintained in a recall program for at least one year were recruited for this study. The ultimate purpose of the study is to determine whether the presence of Actinobacillus actinomycetemcomitans, Bacteroides gingivalis, and Bacteroides intermedius in selected periodontal sites can predict the future clinical course of these patients, particularly with respect to disease recurrence. This report presents the clinical design of the study which allows comparisons between sites positive and negative for these species in infected patients, and between sites in infected patients and comparable sites in non-infected patients. In addition, some base line clinical and microbiological data for these patients are presented. The distribution of PII and GI scores tended to be highest for molars, with the remaining teeth having similar scores. Probing depth measurements were greater for mesio-distal than oro-vestibular recordings. A bilaterally symmetrical pattern of increasing probing depth was noted from the midline distally on mesio-distal as well as oro-vestibular surfaces. Sites positive for the target organisms listed above tended to have greater probing depths (mean: 4.14 +/- 0.1 mm) than non-infected sites in the same patients (mean: 3.76 +/- 0.1 mm) or comparable sites in non-infected patients (mean: 3.54 +/- 0.1 mm).