These rules are an attempt to make D&D diseases into the subtle and frightening killers that real-life diseases can be.  In game terms this means drawing out the effects of the disease and making the player unsure of exactly what is wrong with him.  Each of the diseases detailed here follow the same format, the details of which are described below.  At the end of the list of maladies is an in depth treatment of various symptoms that accompany many ailments.  The effects of many of these symptoms will be just as dangerous as the disease that causes them.   All of the diseases that are described below are from reality, except Corpse Fever that is from Domibia.  Also it should be mentioned that I have intentionally given treatments that are appropriate for a fantasy setting, i.e.: low tech.  At some point I might add the modifiers for modern drugs and treatment.
WARNING!!!!  As with all of my rules, these add quite a bit of detail and realism and of course that means some more bookkeeping and additional complexity. 

Infection: To avoid infection an exposed character must make a Fortitude check  (- any modifiers for being Fatigued or Exhausted).  The DC of the disease is its Virulence rating.

Incubation: All diseases have an incubation period, during which they are undetected. After the incubation period ends, the disease begins the 1st Stage. Once the 1st Stage has run its course the 2nd Stage will begin, after which recovery is possible if still living.

Diagnosis: A Heal skill roll may not be attempted for diagnostic purposes until the 1st Stage of the disease has begun. All diseases have two modifiers to diagnostic use of the Heal skill, one for the 1st Stage and one for the 2nd. A failed diagnostic Heal roll will result in a misdiagnosis, the effects of which vary from disease to disease and are listed in the description of each disease.

Treatment: Treatments for each of the diseases are listed in the descriptions. Treatment that is begun during the 2nd Stage of a disease will not be as effective, multiply any modifiers by 75% and round down.  Treatment involves a Heal skill check using the same DC as the diagnosis attempt.

Recovery: If a character receives proper treatment (not necessarily limited to the specifics listed under Treatment) for a disease, they may attempt a Recovery roll after each Stage of the disease has passed. If a character does not receive proper treatment a Recovery roll may only be attempted when the 2nd Stage has run its course. Recovery is a Fortitude check modified by the Heal skill of person giving aid + Treatment modifiers.

Death: There is a chance of dying if the Recovery roll fails after the 2nd Stage, the roll to avoid death is listed in the description of each disease.  This is a straight Fortitude check, with no modifiers for Heal skill or treatment.

Post Recovery: If death is avoided then the character begins the Post Recovery Stage. The Post Recovery Stage has two values, one for use with characters who received no medical treatment and one for those that did.

Examples of Some Common Diseases

Dysentery

Course of Disease

Transmission; Contaminated food and/or water

Incubation Period; 1-3 days

Virulence; DC 13

1st Stage; 3 days

Symptoms; Abdominal pain, diarrhea

2nd Stage; 7 days

Diagnosis; 1st Stage; DC 15

Recovery; DC 25

Diagnosis; 2nd Stage; DC 10

Roll to Avoid Death; DC 3

Misdiagnosed as; Cholera, Minor Disease

Post Recovery Stage; 7 days

Treatment; Replace Fluids (+9),

With Treatment; Fatigued / 7 days

Relieve Pain (+5)

Without Treatment; Exhausted / 3 days, Fatigued / 4 days

 

Cholera

Course of Disease

Transmission; Contaminated food and/or water

Incubation Period; 1 day

Virulence; DC 10

1st Stage; 3 days

Symptoms; Abdominal pain, fever, diarrhea

2nd Stage; 3 days

Diagnosis; 1st Stage; DC 15

Recovery; DC 27

Diagnosis; 2nd Stage; DC 10

Roll to Avoid Death; DC 5

Misdiagnosed as; Dysentery

Post Recovery Stage; 4 weeks

Treatment; Relieve Pain & Fever (+8)

With Treatment; Exhausted / 2 weeks, Fatigued / 2 weeks

 

Without Treatment; Exhausted / 3 weeks, Fatigued / 1 week

 

Hepatitis

Course of Disease

Transmission; Contact with infected person, contaminated food and/or water

Incubation Period; 1d6 weeks

Virulence; DC 7

1st Stage; 3 days

Symptoms; Body pain, fever, malaise

2nd Stage; 5 days

Diagnosis; 1st Stage; DC 20

Recovery; DC 23

Diagnosis; 2nd Stage; DC 15

Roll to Avoid Death; DC 4

Misdiagnosed as; Minor Disease

Post Recovery Stage; 2 weeks

Treatment; Relieve Pain & Fever (+8)

With Treatment; Fatigued / 2 weeks

 

Without Treatment; Exhausted / 2 weeks, Fatigued / 2 weeks

   

  Food Poisoning

Course of Disease

Transmission; Contaminated food

Incubation Period; 1 day

Virulence; DC 7

1st Stage; 2 days

Symptoms; Severe abdominal pain, abdominal cramps, 40% = fever

2nd Stage; 7 days

Diagnosis; 1st Stage; DC 15

Recovery; DC 31

Diagnosis; 2nd Stage; DC 10

Roll to Avoid Death; DC 3

Misdiagnosed as; Cholera

Post Recovery Stage; 2 weeks

Treatment; Relieve Symptoms (+8)

With Treatment; Fatigued / 2 weeks

If Heal roll is made by 5+ (+10)

Without Treatment; Exhausted / 1 week, Fatigued / 1 week

 

Pneumonia

Course of Disease

Transmission; Contact with contaminated person, air-borne particulates

Incubation Period; 1d6 days

Virulence; DC 10

1st Stage; 5 days

Symptoms; Cough, fluid-filled lungs, fever, chest pain, general discomfort

2nd Stage; 9 days

Diagnosis; 1st Stage; DC 15

Recovery; 27

Diagnosis; 2nd Stage; DC 10

Roll to Avoid Death; DC 4

Misdiagnosed as; Minor Disease, Plague

Post Recovery Stage; 1 week

Treatment; Relieve Pain & Fever (+8)

With Treatment; no effect

If Heal roll made by 2+ (+9)

Without Treatment; Fatigued / 1 week

 

Typhoid Fever

Course of Disease

Transmission; Contact with contaminated person, contaminated food and/or water

Incubation Period; 1-3 days

Virulence; DC 7

1st Stage; 1 week

Symptoms; Severe fever, general body pain, cough, apathy

2nd Stage; 1-2 weeks

Diagnosis; 1st Stage; DC 20

Recovery; 26

Diagnosis; 2nd Stage; DC 15

Roll to Avoid Death; DC 4

Misdiagnosed as; Pneumonia, Plague

Post Recovery Stage; 6 weeks

Treatment; none

With Treatment; Exhausted / 3 weeks, Fatigued / 3 weeks

 

Without Treatment; Exhausted / 4 weeks, Fatigued / 2 weeks

   

 

  Typhus

Course of Disease

Transmission; Carried by body lice

Incubation Period; 1 day

Virulence; DC 7

1st Stage; 5 days

Symptoms; Fever, headache, rash

2nd Stage; 10 days

Diagnosis; 1st Stage; DC 10

Recovery; 25

Diagnosis; 2nd Stage; DC 7

Roll to Avoid Death; DC 5

Misdiagnosed as; Minor Disease

Post Recovery Stage; 2 weeks

Treatment; none

With Treatment; no effect

 

Without Treatment; Exhausted / 2 weeks, Fatigued / 2 weeks

 

Rabies

Course of Disease

Transmission; Contact with body fluids, usually through animal bites

Incubation Period; 1d6 weeks

Virulence; DC 5

1st Stage; 2 weeks

Symptoms; 1st Stage: Fever, malaise, sore throat  
2nd Stage: Severe joint pain, excessive sweating

2nd Stage; 1 week

Diagnosis; 1st Stage; DC 15

Recovery; 33

Diagnosis; 2nd Stage; DC 10

Roll to Avoid Death; DC 22

Misdiagnosed as; Minor Disease

Post Recovery Stage; 20 weeks

Treatment; none

With Treatment; Exhausted / 10 weeks, Fatigued / 10 weeks

 

Without Treatment; Exhausted / 15 weeks, Fatigued / 5 weeks

 

Bubonic Plague

Course of Disease

Transmission; Rat-borne fleas

Incubation Period; 1d6 days

Virulence; DC 7

1st Stage; 5 days

Symptoms; Fever, swollen lymph nodes, severe abdominal pain

2nd Stage; 10 days

Diagnosis; 1st Stage; DC 15

Recovery; 27

Diagnosis; 2nd Stage; DC 10

Roll to Avoid Death; DC 22

Misdiagnosed as; Minor Disease, Pneumonia

Post Recovery Stage; 15 weeks

Treatment; Relieve Pain & Fever (+5)

With Treatment; Exhausted / 8 weeks, Fatigued / 7 weeks

 

Without Treatment; Exhausted / 10 weeks, Fatigued / 5 weeks

   

 

  Pneumonic Plague

Course of Disease

Transmission; Contact with air-borne particulates

Incubation Period; 1d6 days

Virulence; DC 13

1st Stage; 3 days

Symptoms; Fever, swollen lymph nodes, severe abdominal pain, severe cough, chills

2nd Stage; 7 days

Diagnosis; 1st Stage; DC 15

Recovery; 30

Diagnosis; 2nd Stage; DC 10

Roll to Avoid Death; DC 22

Misdiagnosed as; Minor Disease, Pneumonia

Post Recovery Stage; 15 weeks

Treatment; Relieve Pain & Fever (+3)

With Treatment; Exhausted / 8 weeks, Fatigued / 7 weeks

 

Without Treatment; Exhausted / 10 weeks, Fatigued / 5 weeks

 

Minor Disease

Course of Disease

Transmission; Varies

Incubation Period; 1-3 days

Virulence; DC 2 - 7